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Can u send me the reference acession no of yr gene SLC22A1, I mean is it NM_003057 or something else??
If it is NM_003075 then mentioned below is the promoter sequence
>hg18_refGene_NM_003057 range=chr6:160461853-160499604 5'pad=0 3'pad=0 strand=+ repeatMasking=none
tccttactcacctcacgtgtagatctgttttcagtagtcatcactacatg
ttataatggtagctcttagtaattgttaattttggtgaaatacccagtaa
gttattttagttacgtacttaggtgcagatgaggtctaactatttccagc
atagctagggcaggccctaccaaactgcaaagcaggaaagttgaacaatt
ttcaaaagccaaagcagtttatgaccttaaagcatttagtcaacctagtt
tctgacttgcataatttagaccatgtctatattttgaagacatttctatt
ttcattttactgataatttaaaagacagcctatttagcaaagtcatactt
aagtgaatttgaaaattgcttagacttatttacttaatttatgaacactc
ttttacttataagccaatttggtagacacaacatataacagtaagtgtac
atacaagtaaacacatctagacatgtatacacacacacaaatgaagaggt
ggagcttaaaacacccaaattgggtgcagtgtatactgcttgggagatgg
atgcaccaaaatctcacaaatcaccactaaagaacctgctcatgtaacca
aataatacctgttccctcaaaacctatgggaaaaaaaaactaaaaaaaat
acttaaatggtatcacagaactaattagccgaatacagtatctagtacct
ggctgtcacccaatacttgcctcataccatcacatctagaaaacaagtag
atattctttttggaagagccctgagggagctactaggaggtttgcacggc
ctgctctcctgccctcttcttgctctgtggctgaacttcaattctcttcg
ggcttagaccccactgactcgctcccgggcaaagcaaacgatttgatcag
atggccacgtgcattcttccttttcctgaaaccagcaccatagggtaaaa
gattatttctacttggttgccttccagatgtttcacacttggacagcaaa
ctgatttcaaaccactccttttcaaagatctctgagggagacattgcacc
tggccactgcagcccagagcaggtctggccacggccatgagcatgctgag
ccatc
ATGCCCACCGTGGATGACATTCTGGAGCAGGTTGGGGAGTCTGGC: CDS
I have got this sequence from UCSC genome browser, the details of the same can be viewed at
http://genome.ucsc.e...p;submit=submit
sandi, on Oct 6 2009, 01:43 AM, said:
Hi firoz,
thanks for the detailed description - been digging ma brains out on trying to find a suitable promoter prediction program - but i dont quite understand the alignment of the possible promoter sequence obtained from ensembl with the UCSC BLAT search. what do u mean by "Zoom out a bit, you will be able to determine whether the promoter sequence matches UCSC annotation".
I am specifically looking for the promoter of the human SLC22A1 gene mapped onto chromosome 6. COuld you please help me out with this?
thanks for the detailed description - been digging ma brains out on trying to find a suitable promoter prediction program - but i dont quite understand the alignment of the possible promoter sequence obtained from ensembl with the UCSC BLAT search. what do u mean by "Zoom out a bit, you will be able to determine whether the promoter sequence matches UCSC annotation".
I am specifically looking for the promoter of the human SLC22A1 gene mapped onto chromosome 6. COuld you please help me out with this?
