Corroborate Splicing Variants

Question

[friasoler]

Dear all I have a fasta file with 58 possible Splicing variants for a gene; but I would like to corroborate they really are. Is there any tool I can use to map and visualize how those sequences effectivelly matcht with potential different variants of the gene? here im posting few sequences ..... Thanks in advance !

>isotig00006
TTATTCATAGGATCCAGAGAACAACCCAAATAACAACCTGAGCACCTATTAAAGGACAATCTGTGGGCTTCTCCTTCTACATAGCATTTCACACTGTGACAGAGTCTGTGTGTAAGAGAGAGAAGAAGAATGGAGAACTCCAGGAAAGCATTTACTGATTTTGTAGATAAAGCAGTAGCAGCTGCCAGCTTACTGAATCGAGATGAACTGATGTTTTCTTACAAGGGAATTCTCTACCCTGTCACGATTTGCAGTCCTGAAGCATTCAAAGCCTTGGAGTCCTTTGAAGCCAGAAGTGATGATGTCATTTTGGCAGCATACCCTAAATCCGGCACAAACTGGCTAAGTCAAATCTTAAATGACCTTATAGCCATATCTCAAAAGAAAACACTGAGTAAGGAAAGCACTGGGGATGCTGAAAAACCACAAGAATTCCCTTACCTTGAAGTTGGAGATCCTGAGAAATATGAGAGAATGATGAAATTACCTTCTCCAAGATTTATGGTTACTCATCTCCGTCCTGAGAATCTTCCCACGTCTATCTTCAGAAACAAAGTGAAGATATTGTTACTGGTTCGTAATCCCAAAGATGTAGCCACATCTTTTTTCCATTTTTGTAATGGCATAGCTACTCTTCCCTCCTATGACACCTGGGATGATTTCTTCACAGATTTCATGTCAAAGAAAGTGGCCTGGGGAAGCTACTTTGAATATCTTTCTGAATGGAATAAATACATTGACAAAGAAAATATTATGACAATAACTTATGAAGAGCTAAAAGAGAATCGTGCCCTGGGTGTAAAAAACATAGCTGCATTCTTTGGAATTCCTCTGACTGAGGAAGAGCTCCAGCTTGTGGTAGAGAGGAGCAGCTTCCAGTCCATGAAGAAAAACTCAGAGAAGACCCACGGGTCATTTGGCAATGTTTTCTTTCGCAAAGGTGGTGTAAGAGACTGGAAGAATCTTTTCAGTGAAGAACAGAATGAGAAAATGGACAAAGTGTTTGAAGAACAAGTAGCAGGAACTAAGCTTGGAAAAAAGTTGAAGTATGACGTGTACTGCAAAGCCTGAAAAGTAATGAAATGGGGTTAGAGCAAGAACTTTGCAAGGCAGACTCAATCATCTGAATGCTCTTCACTGGAATACTAGATCAATGATCCAAGCACTTTAGAATTGCAGTAAGAATCATTACAGCAGCCTTTGCAGTGACTGTGATGAGCAATGGTTTTCTGTTTTATGGTGAGATCTATGGCTACACCCATTTGCTGAAGATGTCAACTAATCCTATTTACAAAAACTCGACAACTGTGATCTGGAATGAAATGTCTCTTTTGTTTCTAACCAAGTTCCACCTTTCTAGACTATTCATAATCATTTGCTATGCAATTATTTTTTTATTCAGAAATGTTTCAAATAAAGCAACACCTTCATAGATAATATAACTAACCTAATGATAAAGAAGATATTCCATGAATTCAGCACAAACTAAATCAAAGCTAGAGGGAGGAGAAAAAAGGGGAATACGGATCAACATTCTTAAGGCTTTTCATTCTCTGAATACAAAATATCCAGTTGGATGTCAGATCATGGTCGGAGATTTACAGGCAAGATTCCCTCAGAGACACTGCTTTTTATAGGATCACAGAACAGCTCAGGTTGGAAGAGACCTTGAAAAATTCATCTGGTCCTTTCATGAAAAAGGGAGGCTGGATGAGATTCTATCTAGATATCATATCTTGAAAACCTCCAATGATGAGGATTCTACCATGTTCCTGGAGGCCTTTACCCAGCAAATCATTGCTCTTGCTGTAAAAAATGTACTTAATGTACCAAGATTAAACGTACCTGTTCATGTACCTGTTGCGACTTGAACGCCCTATTTCTTCTCCACGTGGTGTCCCATGAACAGGGAGCCTTTATCCTCTTGGTAGCTGCCCTTTAAGTATTGGAAGCTGTGATGATGTTGTCCCTGAACCTCCTCAACTTTGTGGTCCTCCCTTGGAACCCCTCTGGTTTGTCTTTCTTGCAAATGCCTCTGTTGAGACAGTGGGATTGTCAAGAGTGATGGTGCCAGCCATTGTTATAGCCAGCTCTCTTGTACTGCCATTGGCATTTGCCTCTCTAGAAACAGTATTTCGGACTTATCATGGACCTGTTCTGGAAAAAAGCAGGCAAAGAACTTTCTGTAAGTACAGATGAATTGAAAACAGGAAAAACCCCACACAATTTATAGATCCATCACCTGAGCTGATAAGACGTAAAAAAAGAGAAAATACACTTGGAAGAATGAAATATTTGAAGACTTTTTGTATCATTCTTCTGAAGCTGGTTGGTCCTGCCTGGACATAAATGGACATGCAGGGTTTTTAAAGAAATAGGAATGCTAGAACTAATGCTTAGAATATATAGAAAAAATGAATGGATTCAAGAAGCAGAGCAGTAGAAAGCCATCTTTGAACAATTACAAGTTATCTGTAAGCAGCCAGAAAGGCACCAGATTTCTGAAAGAAACATACATAAGAGCAGTGTCTAAAAACTTGAGGAAATAGAATCAGAGTAGAACAGCCACCTTAACTTGATACATAGAAATGTAGTAGGAAAAATGAGAAAAGCAACCACCGTGGAACATTTTGAAGATAATGAAATAGTAAATATAAATCATGCTAAAGAAGTTTGTGATCCTCCTTAAGATAACTTACCTTTTGAATAAGGCACTGACAGAAAATACAAGAGCTGACAGCTCAGGGAAGGACTGAAATTATGTGATTTAAGAGACAAATTTATGTGGAGACGAGAGTGTACAAATGTGATTATAGAAATGAAAGTACTGAAAGTAGACTTAGGTTCATAGAAATTCATGCAACAGCAATAAAAGGCATTCAGAAACACTGTCAGCAGCAGCAGTACTTTCAGGAATATTTACTTGTTTACATGGATATTATGAACTTGGTTGCAATAGTATGTTTATGGTCACACTGTATATACTGGTTTACAGCAAAATTGGGAGGGCAATTAAAACAATATCCTTTAGTAGTGGATCCTAGTCATATTCAATATTGTTTTTAACACCAGTGGACAGGCTAATATAATATACAATATCATAAATGACTGACTTTTAAGTCTGGGGATCAGAATAGAAGAATGAAAGTACTGGTAAAATGGCAAAAACAATTTGAAACATAACAAATTGAGATTAGGGAACACAAAGTTTAGTAAAGGTTAGTGCAAAACTTTATTTTTAGAAAAGGAAGTCAAAGGAACAGGTACTTGGTGGGGTAAATCAGTCAGGCAGCAGTTGGCATAAAAACACTTGAGGAATCACACTCAGCAAGGACTAACATGATGACAGTGCTAGAAAAAAAGGGCTCAGATCTTATTCTGGTCTTGCTGATCTAATTGAAAACCAAAACCATGACCTGTTTTTGCAGTTTTATCCTCTTCTGTGTCATACCAAGGTTTGAATTCAGTTCTTTATGCCCTTAACAATCTCACTCTGAAGGACAGAGCTATTCAGAGCAGAAAATCCACATGTGCTTTTGCTCCATTAGAGATACTATGTGGGCCCTTGCATTCAGTGGGATAAGGAGGTGGAATAAAGGAGGCAAGATGCCATGGCAAAAAATAAATGTAGGCAAGGAAACTTCATGGATTAGTAACATTTTGAGAGTGAAAAGTAAGCAGAGATGAAAAGAGTGTGAGAATCAGTTGAGAAAAACTTGTGAATCTTTTTCGAACATAAGACATAATTGACTGACATGAT
>isotig00007
GCGATCTGTGAGTTTCTAGTTCTACATAGCATTTCACACTGTGACAGAATCTGTGTGTGTGACAGAGAGAAGAAGAATGGAAAACTCCAGGAAAGCATTTACTGATTTTGTAGATAAAGCAGTAGCAGCCGCCAGCTTATTGAATCGAGATGAACTGATGTTTTCTTACAAGGGAATTCTCTACCCTGTCACAATTTGCAGTCCTGAAGCATTCAAAGCCTTGGAGTCCTTTGAAGCCAGAAGTGATGATGTCATTTTGGCAGCATACCCTAAATCCGGCACAAACTGGCTAAGTCAAATCTTAAATGACCTTATAGCCATATCTCAAAAGAAAACACTGAGTAAGGAAAGCACTGGGGATGCTGAAAAACCACAAGAATTCCCTTACCTTGAAGTTGGAGATCCTGAGAAATATGAGAGAATGATGAAATTACCTTCTCCAAGATTTATGGTTACTCATCTCCGTCCTGAGAATCTTCCCATGTCTATCTTCAGAAACAAAGTGAAGATATTGTTACTGGTTCGTAATCCCAAAGATGTAGCCACATCTTTTTTCCATTTTTGTAATGGCATAGCTACTCTTCCCTCCTATGACACCTGGGATGATTTCTTCACAGATTTCATGTCAAAGAAAGTGGCCTGGGGAAGCTACTTTGAATATCTTTCTGAATGGAATAAATACATTGACAAAGAAAATATTATGACAATAACTTATGAAGAGCTAAAAGAGAATCGTGCCCTGGGTGTAAAAAACATAGCTGCATTCTTTGGAATTCCTCTGACTGAGGAAGAGCTCCAGCTTGTGGTAGAGAGGAGCAGCTTCCAGTCCATGAAGAAAAACTCAGAGAAGACCCACGGGTCATTTGGCAATGTTTTCTTTCGCAAAGGTGGTGTAAGTGACTGGAAGAATCTTTTCAGTGAAGAACAGAATGAGAAAATGGACAAAGTGTTTGAAGAACAAGTAGCAGGAACTAAGCTTGGAAAAAAGTTGAAGTATGACGTGTACTGCAAAGCCTGAAAAGTAATGAAATGGGGATAGAAAAAGAACTCTGTAAGGCAGACTCAGATCATCTGAATGCTCTACACTGGAATACTAGATCAATGATCCAAGCACTTTAGAATTGCAGTAAGAATCATTACAGCAGCCTTTGCAGTGACTGTGATGAGCAATGGTTTTCTGTTTTATGGTGAGATCTATGGCTACACCCATTTGCTGAAGATGTCAACTAATCCTATTTACAAAAACTCGACAACTGTGATCTGGAATGAAATGTCTCTTTTGTTTCTAACCAAGTTCCACCTTTCTAGACTATTCATAATCATTTGCTATGCAATTATTTTTTTATTCAGAAATGTTTCAAATAAAGCAACACCTTCATAGATAATATAACTAACCTAATGATAAAGAAGATATTCCATGAATTCAGCACAAACTAAATCAAAGCTAGAGGGAGGAGAAAAAAGGGGAATACGGATCAACATTCTTAAGGCTTTTCATTCTCTGAATACAAAATATCCAGTTGGATGTCAGATCATGGTCGGAGATTTACAGGCAAGATTCCCTCAGAGACACTGCTTTTTATAGGATCACAGAACAGCTCAGGTTGGAAGAGACCTTGAAAAATTCATCTGGTCCTTTCATGAAAAAGGGAGGCTGGATGAGATTCTATCTAGATATCATATCTTGAAAACCTCCAATGATGAGGATTCTACCATGTTCCTGGAGGCCTTTACCCAGCAAATCATTGCTCTTGCTGTAAAAAATGTACTTAATGTACCAAGATTAAACGTACCTGTTCATGTACCTGTTGCGACTTGAACGCCCTATTTCTTCTCCACGTGGTGTCCCATGAACAGGGAGCCTTTATCCTCTTGGTAGCTGCCCTTTAAGTATTGGAAGCTGTGATGATGTTGTCCCTGAACCTCCTCAACTTTGTGGTCCTCCCTTGGAACCCCTCTGGTTTGTCTTTCTTGCAAATGCCTCTGTTGAGACAGTGGGATTGTCAAGAGTGATGGTGCCAGCCATTGTTATAGCCAGCTCTCTTGTACTGCCATTGGCATTTGCCTCTCTAGAAACAGTATTTCGGACTTATCATGGACCTGTTCTGGAAAAAAGCAGGCAAAGAACTTTCTGTAAGTACAGATGAATTGAAAACAGGAAAAACCCCACACAATTTATAGATCCATCACCTGAGCTGATAAGACGTAAAAAAAGAGAAAATACACTTGGAAGAATGAAATATTTGAAGACTTTTTGTATCATTCTTCTGAAGCTGGTTGGTCCTGCCTGGACATAAATGGACATGCAGGGTTTTTAAAGAAATAGGAATGCTAGAACTAATGCTTAGAATATATAGAAAAAATGAATGGATTCAAGAAGCAGAGCAGTAGAAAGCCATCTTTGAACAATTACAAGTTATCTGTAAGCAGCCAGAAAGGCACCAGATTTCTGAAAGAAACATACATAAGAGCAGTGTCTAAAAACTTGAGGAAATAGAATCAGAGTAGAACAGCCACCTTAACTTGATACATAGAAATGTAGTAGGAAAAATGAGAAAAGCAACCACCGTGGAACATTTTGAAGATAATGAAATAGTAAATATAAATCATGCTAAAGAAGTTTGTGATCCTCCTTAAGATAACTTACCTTTTGAATAAGGCACTGACAGAAAATACAAGAGCTGACAGCTCAGGGAAGGACTGAAATTATGTGATTTAAGAGACAAATTTATGTGGAGACGAGAGTGTACAAATGTGATTATAGAAATGAAAGTACTGAAAGTAGACTTAGGTTCATAGAAATTCATGCAACAGCAATAAAAGGCATTCAGAAACACTGTCAGCAGCAGCAGTACTTTCAGGAATATTTACTTGTTTACATGGATATTATGAACTTGGTTGCAATAGTATGTTTATGGTCACACTGTATATACTGGTTTACAGCAAAATTGGGAGGGCAATTAAAACAATATCCTTTAGTAGTGGATCCTAGTCATATTCAATATTGTTTTTAACACCAGTGGACAGGCTAATATAATATACAATATCATAAATGACTGACTTTTAAGTCTGGGGATCAGAATAGAAGAATGAAAGTACTGGTAAAATGGCAAAAACAATTTGAAACATAACAAATTGAGATTAGGGAACACAAAGTTTAGTAAAGGTTAGTGCAAAACTTTATTTTTAGAAAAGGAAGTCAAAGGAACAGGTACTTGGTGGGGTAAATCAGTCAGGCAGCAGTTGGCATAAAAACACTTGAGGAATCACACTCAGCAAGGACTAACATGATGACAGTGCTAGAAAAAAAGGGCTCAGATCTTATTCTGGTCTTGCTGATCTAATTGAAAACCAAAACCATGACCTGTTTTTGCAGTTTTATCCTCTTCTGTGTCATACCAAGGTTTGAATTCAGTTCTTTATGCCCTTAACAATCTCACTCTGAAGGACAGAGCTATTCAGAGCAGAAAATCCACATGTGCTTTTGCTCCATTAGAGATACTATGTGGGCCCTTGCATTCAGTGGGATAAGGAGGTGGAATAAAGGAGGCAAGATGCCATGGCAAAAAATAAATGTAGGCAAGGAAACTTCATGGATTAGTAACATTTTGAGAGTGAAAAGTAAGCAGAGATGAAAAGAGTGTGAGAATCAGTTGAGAAAAACTTGTGAATCTTTTTCGAACATAAGACATAATTGACTGACATGAT
>isotig00008
GCGATCTGTGAGTTTCTAGTTCTACATAGCATTTCACACTGTGACAGAATCTGTGTGTGTGACAGAGAGAAGAAGAATGGAAAACTCCAGGAAAGCATTTACTGATTTTGTAGATAAAGCAGTAGCAGCCGCCAGCTTATTGAATCGAGATGAACTGATGTTTTCTTACAAGGGAATTCTCTACCCTGTCACAATTTGCAGTCCTGAAGCATTCAAAGCCTTGGAGTCCTTTGAAGCCAGAAGTGATGATGTCATTTTGGCAGCATACCCTAAATCCGGCACAAACTGGCTAAGTCAAATCTTAAATGACCTTATAGCCATATCTCAAAAGAAAACACTGAGTAAGGAAAGCACTGGGGATGCTGAAAAACCACAAGAATTCCCTTACCTTGAAGTTGGAGATCCTGAGAAATATGAGAGAATGATGAAATTACCTTCTCCAAGATTTATGGTTACTCATCTCCGTCCTGAGAATCTTCCCATGTCTATCTTCAGAAACAAAGTGAAGATATTGTTACTGGTTCGTAATCCCAAAGATGTAGCCACATCTTTTTTCCATTTTTGTAATGGCATAGCTACTCTTCCCTCCTATGACACCTGGGATGATTTCTTCACAGATTTCATGTCAAAGAAAGTGGCCTGGGGAAGCTACTTTGAATATCTTTCTGAATGGAATAAATACATTGACAAAGAAAATATTATGACAATAACTTATGAAGAGCTAAAAGAGAATCGTGCCCTGGGTGTAAAAAACATAGCTGCATTCTTTGGAATTCCTCTGACTGAGGAAGAGCTCCAGCTTGTGGTAGAGAGGAGCAGCTTCCAGTCCATGAAGAAAAACTCAGAGAAGACCCACGGGTCATTTGGCAATGTTTTCTTTCGCAAAGGTGGTGTAAGAGACTGGAAGAATCTTTTCAGTGAAGAACAGAATGAGAAAATGGACAAAGTGTTTGAAGAACAAGTAGCAGGAACTAAGCTTGGAAAAAAGTTGAAGTATGACGTGTACTGCAAAGCCTGAAAAGTAATGAAATGGGGTTAGAGCAAGAACTTTGCAAGGCAGACTCAATCATCTGAATGCTCTTCACTGGAATACTAGATCAATGATCCAAGCACTTTAGAATTGCAGTAAGAATCATTACAGCAGCCTTTGCAGTGACTGTGATGAGCAATGGTTTTCTGTTTTATGGTGAGATCTATGGCTACACCCATTTGCTGAAGATGTCAACTAATCCTATTTACAAAAACTCGACAACTGTGATCTGGAATGAAATGTCTCTTTTGTTTCTAACCAAGTTCCACCTTTCTAGACTATTCATAATCATTTGCTATGCAATTATTTTTTTATTCAGAAATGTTTCAAATAAAGCAACACCTTCATAGATAATATAACTAACCTAATGATAAAGAAGATATTCCATGAATTCAGCACAAACTAAATCAAAGCTAGAGGGAGGAGAAAAAAGGGGAATACGGATCAACATTCTTAAGGCTTTTCATTCTCTGAATACAAAATATCCAGTTGGATGTCAGATCATGGTCGGAGATTTACAGGCAAGATTCCCTCAGAGACACTGCTTTTTATAGGATCACAGAACAGCTCAGGTTGGAAGAGACCTTGAAAAATTCATCTGGTCCTTTCATGAAAAAGGGAGGCTGGATGAGATTCTATCTAGATATCATATCTTGAAAACCTCCAATGATGAGGATTCTACCATGTTCCTGGAGGCCTTTACCCAGCAAATCATTGCTCTTGCTGTAAAAAATGTACTTAATGTACCAAGATTAAACGTACCTGTTCATGTACCTGTTGCGACTTGAACGCCCTATTTCTTCTCCACGTGGTGTCCCATGAACAGGGAGCCTTTATCCTCTTGGTAGCTGCCCTTTAAGTATTGGAAGCTGTGATGATGTTGTCCCTGAACCTCCTCAACTTTGTGGTCCTCCCTTGGAACCCCTCTGGTTTGTCTTTCTTGCAAATGCCTCTGTTGAGACAGTGGGATTGTCAAGAGTGATGGTGCCAGCCATTGTTATAGCCAGCTCTCTTGTACTGCCATTGGCATTTGCCTCTCTAGAAACAGTATTTCGGACTTATCATGGACCTGTTCTGGAAAAAAGCAGGCAAAGAACTTTCTGTAAGTACAGATGAATTGAAAACAGGAAAAACCCCACACAATTTATAGATCCATCACCTGAGCTGATAAGACGTAAAAAAAGAGAAAATACACTTGGAAGAATGAAATATTTGAAGACTTTTTGTATCATTCTTCTGAAGCTGGTTGGTCCTGCCTGGACATAAATGGACATGCAGGGTTTTTAAAGAAATAGGAATGCTAGAACTAATGCTTAGAATATATAGAAAAAATGAATGGATTCAAGAAGCAGAGCAGTAGAAAGCCATCTTTGAACAATTACAAGTTATCTGTAAGCAGCCAGAAAGGCACCAGATTTCTGAAAGAAACATACATAAGAGCAGTGTCTAAAAACTTGAGGAAATAGAATCAGAGTAGAACAGCCACCTTAACTTGATACATAGAAATGTAGTAGGAAAAATGAGAAAAGCAACCACCGTGGAACATTTTGAAGATAATGAAATAGTAAATATAAATCATGCTAAAGAAGTTTGTGATCCTCCTTAAGATAACTTACCTTTTGAATAAGGCACTGACAGAAAATACAAGAGCTGACAGCTCAGGGAAGGACTGAAATTATGTGATTTAAGAGACAAATTTATGTGGAGACGAGAGTGTACAAATGTGATTATAGAAATGAAAGTACTGAAAGTAGACTTAGGTTCATAGAAATTCATGCAACAGCAATAAAAGGCATTCAGAAACACTGTCAGCAGCAGCAGTACTTTCAGGAATATTTACTTGTTTACATGGATATTATGAACTTGGTTGCAATAGTATGTTTATGGTCACACTGTATATACTGGTTTACAGCAAAATTGGGAGGGCAATTAAAACAATATCCTTTAGTAGTGGATCCTAGTCATATTCAATATTGTTTTTAACACCAGTGGACAGGCTAATATAATATACAATATCATAAATGACTGACTTTTAAGTCTGGGGATCAGAATAGAAGAATGAAAGTACTGGTAAAATGGCAAAAACAATTTGAAACATAACAAATTGAGATTAGGGAACACAAAGTTTAGTAAAGGTTAGTGCAAAACTTTATTTTTAGAAAAGGAAGTCAAAGGAACAGGTACTTGGTGGGGTAAATCAGTCAGGCAGCAGTTGGCATAAAAACACTTGAGGAATCACACTCAGCAAGGACTAACATGATGACAGTGCTAGAAAAAAAGGGCTCAGATCTTATTCTGGTCTTGCTGATCTAATTGAAAACCAAAACCATGACCTGTTTTTGCAGTTTTATCCTCTTCTGTGTCATACCAAGGTTTGAATTCAGTTCTTTATGCCCTTAACAATCTCACTCTGAAGGACAGAGCTATTCAGAGCAGAAAATCCACATGTGCTTTTGCTCCATTAGAGATACTATGTGGGCCCTTGCATTCAGTGGGATAAGGAGGTGGAATAAAGGAGGCAAGATGCCATGGCAAAAAATAAATGTAGGCAAGGAAACTTCATGGATTAGTAACATTTTGAGAGTGAAAAGTAAGCAGAGATGAAAAGAGTGTGAGAATCAGTTGAGAAAAACTTGTGAATCTTTTTCGAACATAAGACATAATTGACTGACATGAT
>isotig00009
ATTATTATTCATAGGGTCAAGAAAAAAAACCCAAAGAACAAACTGAGCACCTATTAAAGGACAATCTGTGGGCTTCTCCTTCTACATAGCATTTCACACTGTGACAGAATCTGTGTGTGTGACAGAGAGAAGAAGAATGGAGAACTCCAGGAAAGCATTTACTGATTTAATAGCTAAAGGAGTAGCAGCTGGCAGCGTAATGAAACGCGATGAAATGATGTTTTCTCACAAGGGAATTCTCTATCCTACCACAATTTGCAGTCCTGAAGCATTCAAAGCCTTGGAGTCCTTTGAAGCCAGAAGTGATGATGTCATTTTGGCTGGTTACCCTAAATCCGGCACAAACTGGCTAAGTCAAATCATAAATGACCTCATAGCCATATCTCAAAAGAAAACACTGGGTAAGGAAAAACTAGAAGAATTCCCTTACCTTGAAGTTGGAGATCCTGAGAAATATGAGAGAATGTTGAAATTACCTTCTCCAAGATTTATGGCTACTCATCTCCGTCCTGAGAATCTTCCCACGTCTATCTTCAGAAACAAAGTCAAGATATTGTTACTGGTTCGTAATCCCAAAGATGTAGCCACATCTTTTTTCCATTTTTCCAATGGCCTGGGCATTCTTCCCTCCTATGAGACCTGGGATGATTTCTTCACAGATTTCATGTCAAAGAAAGTGGCCTGGGGAAGCTACTTTGAATATCTTTCTGAATGGAATAAATACATTGACAAAGAAAATATTATGGCAATAACTTATGAAGAGCTAAAAGAGAATCGTGCCCTGGGTGTTAAAAACATAGCTGCATTCTTTGGAATTCCTCTGACTGAGGAAGAGCTCCAGCTTGTGGTAGAGAGGAGCAGCTTCCAGTCCATGAAGAAAAACTCAGAGAAGACCCACGGGTCATTTGGCAATGTTTTCTTTCGCAAAGGTGGTGTAAGTGACTGGAAGAATCTTTTCAGTGAAGAACAGAATGAGAAAATGGACAAAGTGTTTGAAGAACAAGTAGCAGGAACTAAGCTTGGAAAAAAGTTGAAGTATGACGTGTACTGCAAAGCCTGAAAAGTAATGAAATGGGGATAGAAAAAGAACTCTGTAAGGCAGACTCAGATCATCTGAATGCTCTACACTGGAATACTAGATCAATGATCCAAGCACTTTAGAATTGCAGTAAGAATCATTACAGCAGCCTTTGCAGTGACTGTGATGAGCAATGGTTTTCTGTTTTATGGTGAGATCTATGGCTACACCCATTTGCTGAAGATGTCAACTAATCCTATTTACAAAAACTCGACAACTGTGATCTGGAATGAAATGTCTCTTTTGTTTCTAACCAAGTTCCACCTTTCTAGACTATTCATAATCATTTGCTATGCAATTATTTTTTTATTCAGAAATGTTTCAAATAAAGCAACACCTTCATAGATAATATAACTAACCTAATGATAAAGAAGATATTCCATGAATTCAGCACAAACTAAATCAAAGCTAGAGGGAGGAGAAAAAAGGGGAATACGGATCAACATTCTTAAGGCTTTTCATTCTCTGAATACAAAATATCCAGTTGGATGTCAGATCATGGTCGGAGATTTACAGGCAAGATTCCCTCAGAGACACTGCTTTTTATAGGATCACAGAACAGCTCAGGTTGGAAGAGACCTTGAAAAATTCATCTGGTCCTTTCATGAAAAAGGGAGGCTGGATGAGATTCTATCTAGATATCATATCTTGAAAACCTCCAATGATGAGGATTCTACCATGTTCCTGGAGGCCTTTACCCAGCAAATCATTGCTCTTGCTGTAAAAAATGTACTTAATGTACCAAGATTAAACGTACCTGTTCATGTACCTGTTGCGACTTGAACGCCCTATTTCTTCTCCACGTGGTGTCCCATGAACAGGGAGCCTTTATCCTCTTGGTAGCTGCCCTTTAAGTATTGGAAGCTGTGATGATGTTGTCCCTGAACCTCCTCAACTTTGTGGTCCTCCCTTGGAACCCCTCTGGTTTGTCTTTCTTGCAAATGCCTCTGTTGAGACAGTGGGATTGTCAAGAGTGATGGTGCCAGCCATTGTTATAGCCAGCTCTCTTGTACTGCCATTGGCATTTGCCTCTCTAGAAACAGTATTTCGGACTTATCATGGACCTGTTCTGGAAAAAAGCAGGCAAAGAACTTTCTGTAAGTACAGATGAATTGAAAACAGGAAAAACCCCACACAATTTATAGATCCATCACCTGAGCTGATAAGACGTAAAAAAAGAGAAAATACACTTGGAAGAATGAAATATTTGAAGACTTTTTGTATCATTCTTCTGAAGCTGGTTGGTCCTGCCTGGACATAAATGGACATGCAGGGTTTTTAAAGAAATAGGAATGCTAGAACTAATGCTTAGAATATATAGAAAAAATGAATGGATTCAAGAAGCAGAGCAGTAGAAAGTCCTGTGGCTAGCCAACTTTGAACAATTACAAGTTATCTGTAAGCAACCAGGAAGGTACCAGATTTCTGAAGGAAACATACATAAGAGCAGAGTCTAAAAACTTGAGGAAAAAGAATCAGAGTAGAACAGCCACCTTAACTTGATACATTGAAATGTAGTAGCAAAAATGAGAAAGCAACTACCATAGAGCATTTTGAAGATAATGAAACAGTAAATATAAATAATGCTAAAGAAGTTTGTGACCCTCCTTAAGATAACTTACTGTGAGGTTCTCGGACCTCCAGTGCTCTAGACACCAACTATGGATTTCTTAGGCTCCTACCTCGTCGGGTTATCTTAAATAAGGAAAGTAGATTATAGTTAAAAATTATTTATTACAAAGCACATCAGTCTCAACAGGCAATGGCAAAGAGCAATAGCAAGCAATGGCCAATGCAGTGGCAATAAGCGAATGGTTAGAAGCCAGAATGGCTAAATGCAAGTGGCTAAAAGCTGAATGGCTAAAAGCAACAACTCTCCCCAATACAAACTCTTATATAGGATTTTTCCAGCAAGTTAAGATGCAAACTCGGACCAACACTCCTTAACCTATTAGAATTCAAATTCCTGAGCACACCAGGTTACGTATAGAAGTACACATACAATCTATATTGTTCTGTCTGAAAAATGTAAGCAATATTCTTACTATAGCTCTACTATGTCTAAGTCCTTTCTACAACTGTGGGCCAGGAGCCTCTTGCTGATTTGTGAAAGCAAAATAACTTTTTAATTGGTGACCCGAGCTGTCAACTACTAAATCAGCTATCTAACTGGTCCCCGTAGCCCACAGAGGAAGCTCCCAGGAGCGGACAGCCCTCCTGTTTCCAGGCCCGGTGCCCTTCCCTCAGGCAGCCCCCCCATGAGAAACAGCACAACCTGGGAAGACGTCCCTCGGCACAGCCACTCCTGGGAGA

Answer 1

[andrew.j.skelton73]

Blast? - If you're working with a single gene, you can also try multiple sequence alignment tools like MUSCLE

[friasoler]

Thanks andrew, I have try it; but the point is they all dont look like splicing variants ....Muscle and Clustal alignment shown small gaps...polymorphisms. Thats why I would like to Corroborate if i already have real splicing variants. This protein is a Sulfotransferase 6B1 with 7 exons and 9 reported splicing variants for Humans....and I got 58! My data comes from RNASeq. Tx

[andrew.j.skelton73]

How did you derive that they're possible splice variants? 58 seems like a lot, and generally you can pick out which are potential candidates by looking at alignment against known reference. If you still have a lot of targets after that, then consider trying to find out if you can quantify your splice variants in each of your sample replicates, it's much more likely to be real if it's observed in each of your replicates independently. After that, if you're still pretty damn sure that what you're looking at is real, run qPCR on a few of your variants.

[friasoler]

It cames from an automatic annotation. Im using RNASeq data and I got genes with splicing variants ranging from 2 to 82! this is just an example. I'm in the stage at which I need to check if they really are or not splicing variants and give an explanation to that. I would like to have a tool to input my sequences and see how they fit indifferent protein frames or not .-)

[andrew.j.skelton73]

I get that you're using RNA seq data, but what tool gave you the resulting 58 splice variants? There's ExPASy Which will translate your RNA sequence to protein, or check out the EBI's translation tools.