BtaINT0160223 @ bosTau6
Intron Retention
Gene
ENSBTAG00000010355 | VPS37A
Description
Bos taurus vacuolar protein sorting 37 homolog A (S. cerevisiae) (VPS37A), mRNA. [Source:RefSeq mRNA;Acc:NM_001046161]
Coordinates
chr27:19018677-19021544:-
Coord C1 exon
chr27:19021464-19021544
Coord A exon
chr27:19019897-19021463
Coord C2 exon
chr27:19018677-19019896
Length
1567 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAAT
5' ss Score
6.62
3' ss Seq
TGATTTTCTTTTCTTTTCAGATT
3' ss Score
12.04
Exon sequences
Seq C1 exon
ATTTGCCACTGTAGAAGAGCCAAGGAAGAGAAACTTCAACAAGTGATAGCAATGCACAGCCAGTTTCATGCTCCACTATAG
Seq A exon
GTAAATTGTATTCTGGAAGGTTTGTGTCTTGAGGCTATTGCATGGCTCTCTTTAATGAAGTGTTCTTACCAGTGCTTGTTCAGCCAGCTTTAAGCATAATACTGTCGTTACAGCTACCATGCTATGTAACATGTAGAATACTTTGTGTTATCTATTAAGCATGATGTTATACACCTAAGCATATGGCCAGTATAAATTGTTTGCATGTTTTCTCAGTATGGTATTTGCTTAAATGAGTTTTGTTTTCAGTATTTGAAAGCTACATATATAGTTTAAGTTCCTTTCTCTCAGCTGGTATGGGGCATATACCATAACACTTAAGTTGACTTATTTCTCAGTAGTCTCTTTTGTCATTTTTTCCTTTAAAAATGAACTTCCAATCTGTCTCTTTTCCATCTATTCCAGTGAGTTTCTGATCAGTCCTCTGACTTCAGGGTTTCTCCTTTGTGCAGAGCACTGACAAAATGATGCTCCTAAAATACCACTCTGTGATAACATATCTGCTCTAGGACCTTTAAAGAACCCTGGGGATGATAAATGCCACGTTTCTCTCTCTGGTTTTAAGCCTTCTGTAAGCTGGCTGACATTTTAGATCATCCGTTCTAATTTTCCATTTGCCTCTCCTGTGTTCTCTTCTGTCATGTTCTATTTTCTGCCATCATGTCTTTGTTCATGCTCTCATCTGATCTCAAGACATTCTTCCATTTTCCTCTGTCTTGTTTTAGGACTGGATTTGGCTGCAAAGACTAGCTCCAACCTCAAGTTTAAGTAAAAGCTTGTGTTCCTGGATAATGCAGGAAAACAGCCCAAATATAGGAAAGCACACCTGTCTCCTGGGAGTGAAAGCATGAGGCCATCCGTAACCAAAGCAGCTCTTCTTCCTTAGGTGCTGCTACAGGCTGCTTGTTTCTCGTTCCTGCTTTCCTCCCCTTTTCTGCGTCTCACTCTCATGTGCCTTCTCACTGGCTCTTCAAAGAGCCTTTCTTTGCTGCACTTGCACGTGGTTCAGCCCCTGCTGCCCACAGGCCTGATCTGACGGCCCGAGCACCCGGGGAGACTGAGTAGGGTCTCACAACAAATCAAGGAAAGAGACTGGCCCCGCATAGATGGTATCCGTCCTGACCTCACGGTATTACCTGGAGACTGGTGTCATGTGGTCTTCTGTCTGCTTTGCTGGGCTGATGGAGCAGATGTGGAGAAGAGAGCGTGGGAGTTTCCTTTAAAGGGGAGCCGGCTACAGGGAGGGAGGTGTCAGGCATTTCTCATCTCCAGTTCAAATTTACTTGCCCCTTTTCTCAATTTAGCTGTCCTTAACATTAGTAGCAACATTGCGTTATTTTACAACTCAGATTATTAATCCCTGAGGGTGTTGATTTTTAATACCAAGTATAGCAGCAGTAGCATACATATCTCAAGGTTGAGAAGTGGGCAGTGAGTTATTCTGTGTTGACACATGCATGCTAGAATCCTTTCCCACCTCTTTTCCCTCATTGTCAGGTTATCTTAAGAAATCTTAATTTATCATCTGAAAGTAAATCTTAGGTTTTTGATTTTCTTTTCTTTTCAG
Seq C2 exon
ATTTTCCTGAAAACATGAACTGCAAAGAGAGGAATGGGACACAAAACTAAGCACATTTATATTTATGATTTGCAAATTGGCATTTCATCACAAGGCTGAATTCCTAGATGTATTATATAGGTTGTATACAGAACTGAGACTGATTTTGTACAGATTAGAATGATTGCTATGATCTTTGCTTTGAAAATTTTTTCTGCACTATTTGCACTAAAAATGTTTATTTATTGTTGATAAATTCTATCATATTTAAGTTCTACTGCTGTTCCTCTCTTATTATTGATTAAATACCTGTGCATGTAATTTTAGCTACTCTCAATATTTTATAAAATTACTTCATTTAAATTTGTATTTTTAATTTGAAACTGCCTCATTTCTTTATCAAGGATAGTTTGCTTAGATTTTTTTTCCTCTCAACCCTTTTTGAAAAATTACTATTTCAATTGTAGAAAGATTCTTATTTTTTTCTCTTTCTTTCTGGATGATAAAACTTTGAAAAATAATTTGTTTTTAAATATTCATAGTGTCAGGAAACACCAAACCTGCCAATGTGCCATCTCAAGTAATTTTTAATACACAGAATAAATGAAGAGGATAAACCAGCTGTTTTATATACTCTTATTTTTCAAATTAAAGATGCATTTAAAAGGCAATACAGGTAAATAAATATTTTACCTAATAGAAAAATTGCCTTTCATTTAAAGTAGTCCAACATAAACTTTGATGCTAGCTTTTTAAATATAAGTATCTGATGGGTTTGTGGTTAGATGAGGATATGCTATCTGAATTCTGAAGTTTAAAACAATAATTTGTTAATAAATAGTAAAGAACACAAAAGTCAGTGAAATATTCTGACCTTTACTGTGTTAGCTTTTCTCTTATGAAAGCTTTAATAATAAATAAAACTAATATTTAATTTTTAGGCAGTCTAGTTCTTAATTTGATTTTCACTTTAACTTGTATATGTTAAACAGTTTGCTTTTACAGTTCGTTACAGAATGAACATAATTTATGGATAGCAGTGAAAGCCAATTAAGTAGAAAATCTTGAACTAGATTTCCAAGGCTTGGTAAAGTAGCATCCTAATGCCTATTTTCATTTAAACTTCAGTATGATTGCCATTCCAAATCCTAGCATACAGTACAGGTTTTTTTCATCATTCTTCTTTCTATACCTATTTCTGGAAACAGTTTAGGAAAAATAAAATTATTTTCTGAGACTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000010355:ENSBTAT00000013675:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
3' UTR
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=NA
Domain overlap (PFAM):
C1:
PF072008=Mod_r=PD(7.3=40.7)
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCACTGTAGAAGAGCCAAGG
R:
AGAGAGGAACAGCAGTAGAACT
Band lengths:
348-1915
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]