I have download the refGene.txt.gz from UCSC ftp site,
it confused me when I found that OR4F16(which has transcript "NM_001005277") is in different chomesome position:
1964 NM_001005277 chr5 + 180794287 180795226 180794287 18079 5226 1 180794287, 180795226, 0 OR4F16 cmpl cmpl 0,
587 NM_001005277 chr1 + 367658 368597 367658 3685971 367658, 368597, 0 OR4F16 cmpl cmpl 0,
589 NM_001005277 chr1 - 621095 622034 621095 6220341 621095, 622034, 0 OR4F16 cmpl cmpl 0,
How can be a cross chomesome gene? Many thanks if you can provide any tips.
Thank you very much, I'm considering to use Ensembl instead of UCSC.
Yes, give Ensembl a go. You can have the best of both worlds, the Ensembl and the UCSC worlds.