BtaINT0041887 @ bosTau6
Intron Retention
Gene
ENSBTAG00000014575 | COL4A5
Description
collagen, type IV, alpha 5 [Source:HGNC Symbol;Acc:HGNC:2207]
Coordinates
chrX:61809011-61811628:+
Coord C1 exon
chrX:61809011-61809153
Coord A exon
chrX:61809154-61811555
Coord C2 exon
chrX:61811556-61811628
Length
2402 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGA
5' ss Score
9.79
3' ss Seq
TAATGATTTTATTTATTCAGGGT
3' ss Score
6.53
Exon sequences
Seq C1 exon
ATTATCAAGGTCCACCAGGTCCAGAAGGTCCCCGGGGTCTACCTGGAAGTGGGGCTATTAAAGGAGAAAGAGGTAACCCAGGCCAACCTGGGCAACCTGGTTTGCCTGGTTTGAAAGGTGATCAAGGTCCTCCAGGACTCCAG
Seq A exon
GTAGGAAATAGGAATAGATATTTGATGAGAAATGGATGTGGGTGTTTGCATTCAAAATGAGAATTCCAAACTGCATTGTTTTAATTCGCATTTACTGGTCAAGGCTCTTTGCATGGCTTCCTGGTGAAGTACAGAGAAAAAGGCAAGTTCCTGTCTTCTACCAACTAAAGGGACTTTGCTACCTTATAGTTAACGGGTTCCCCCAAAGATAGTTTTAACTGGAGTTCTTGGTGTGTATAGATTTTGATTTCAGAAACTTTGATTTCAGCAAAAGCAAATTATAAAAGGATATGTGGTGTGTGTGTGTGTGTGTGTAAGCATTGCATGTGGATGAGTCTTCCATAGAGAACTGATCATGGTGAGTGGGGATATGTTAGACTTTGTAGTTAGAGTCACTTTGCAGCTCCACTGTACAGTTGTGCTCTGTGTCTATGAGGAAGGCAGACAGATACTTTGTGTTTCTGTCTTTACCTGTAAAAGGAGAATAATAACATATCCCCACGTCTATATTCATGCGTTTTCCACCTTGGTTTGAGTGACCCAGAAAGTCACATGTTTATTTATGTACCCTCAAAGCTTCCTTCCTTCATTCAGGAGGGTTGTTGTTAGATTTGACAGCCAACAAAGTCTGGGCTTAGTCTTTTAGCTTTGATGGCTGCTTTATAGCAGAAAAAAAAATCTAAAGAAATTGTCCTTAAAGTTTAAAACAACCCACCTTTTTCCCTGTTATCGCTATTCTTTTAGACATCTAGACTTAAATTTTTAATCCTCTTTTTATTCATTCTCTACTCACTCCCTACCTCATTCATTTCCAATGTAGTTCCAATTTGCATGTCACTTTGCCAGATTCAAGACTACTGTCTGATACCAACGTTTTATAAACATGGTATTTTCAAGTTCTATTCATTTTCTTTTATGCAAGTTCTTACATTTGTACCCTTTCTAATTTTCATTTTGGAAATAATACTAAACTTATAGAAAATTTTCAAGAATGGTAAAAAACCCTATTTACCCAAATGGACCAGTTGTTAATGTTTTGCCCCATTTGCTCTCTATGTGTATTTTCTCTGTGTGTATATGTATAATTATGTATTTTTTTTCTGAAATAAGCCTATTTTTTTCTTTCATGACCTGGGCATTTTTGAAGAAATATGTGTAGCCCCTTCCCATTAAAAAAAGAATGTTTCTTCTTTTGCCTGCTGTTTCTTCATAATTAGATTGAAGATGTGCCTCCCCAGATGGAATACTCTATGAGTGGTGTGTTCTCAGATATGGAGGCCCACAATATTCATCTGCCCTTAATTAATTATCTTAATTTTTATTTTCCCATTAAGTTGTTACCTGGTTTCTCCACTACATGGTTACTGTTTTTCCCCTTGCAACTAATAAGCAAAACTACAGGAAGACACATTAAGATCATACAACTATACTGTTCCACATCAGAATTTCTTCTTAGAATATCTGTCTATGATTTCTGCCTCAGCCATTCAATTCTGTGATAGTGGCAACTGATGATTGTCCCACTCTAGCACTGCCTCCACATATTCCACTTGGCCCTTCTGTAACCAAGAGCCTCCCTTCTCTTCCATATATTGGCTCTTTGTTATCATCATAGACGCATAAACTCTCATTCTTTTCAATGATTTGTAATTTTTAAACTATCCTTACTTATTTTGATTCTCAAACTGTCCTAGATTTGGGAGCCCCTTCAAGCTGGATCCTATGACTTTATGACATGGCCCCCCTTTAAGCTCTTTCTTACATTTTTGCTTAAGATGTTCTAGACTTGTCTCTTTGTTTGTTACTATTAGTAAACTTCATTGTTCCACACTTACTCTTCCTTTAGGTTCATTCTAGAGTTATTCTCAACTCTTCCTCTCCCCATAGTTTTCCTGGCCCTCAAACCCAATTAATTAACAAGCCTACTCTATTTTTTACTTAGTCTGTTAGACTTCATCACTTCTTGGATTTTAATTCACGCACTTATTACATCAGGGCTACACTCAAAAGAAGTGCCTTTGTTAATGATAATAAAATATTATTGTCATTATATAATTACCATTATATTATAAAATAATATAGCTATTATAGAATAATAACTACCATTAAGTACACATCATAACCAGTTTTCTTAGTACTTAATATCAATTATCTCATTTAATCGTCACAACAACTTCATGAAGTAGATACTATTATTTTCTCTGTTAGAGGTAAGAAAATGATGCAGCAGAAAGAATAAACAATCAACTCAAGGTCACACAAGCTACTAAAAGGTGAACTGAGATTTGAATCCTAAAAGTTTGACTCTAGAGCCAGTTCTGCAAATCACTGTGCAATACCACCTATGCTCTTCCTTCCCTGCCCCCAATATTGTTCTAAAATTAATGATTTTATTTATTCAG
Seq C2 exon
GGTAACCCTGGCCGGCCAGGTCTCAATGGAATGAAAGGAGATCCTGGTCTCCCTGGTGTTCCAGGATTTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014575:ENSBTAT00000019400:44
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PU(0.1=0.0)
A:
NA
C2:
PF0139113=Collagen=FE(38.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]