hg19_3`utr length sequence mismatch and hg38 download

[Saif Ayan Khan]

Dear Sir/Madam,

In the hg19 file, where the start and end indices of the mRNAs are given with respect to the chromosomes and the sequence along with it, the length of the sequence from calculated from the indices and length of the sequence provided don't match. The calculated length comes out greater than the present one. Is there a way to know in the indices, where the smaller sequence lies ?

And how and from where can I download the hg38 file ?

I will be grateful for your help.

[Cath Tyner]

Hello,

Thank you for contacting the UCSC Genome Browser support team.

You can download the hg38 2bit file here:

http://hgdownload.soe.ucsc.edu/downloads.html#human

http://hgdownload.soe.ucsc.edu/goldenPath/hg38/bigZips/

Regarding your other question about mRNA inconsistencies, can you please reply to this mailing list and provide an example? Once our support team has an example, we should be able to provide further assistance. 

Thank you for contacting the UCSC Genome Browser support team. 

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Cath
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Cath Tyner

UCSC Genome Browser, Software QA & User Support

UC Santa Cruz Genomics Institute

UCSC Genome Browser

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