BtaINT0041886 @ bosTau6
Intron Retention
Gene
ENSBTAG00000014575 | COL4A5
Description
collagen, type IV, alpha 5 [Source:HGNC Symbol;Acc:HGNC:2207]
Coordinates
chrX:61800231-61802146:+
Coord C1 exon
chrX:61800231-61800416
Coord A exon
chrX:61800417-61802137
Coord C2 exon
chrX:61802138-61802146
Length
1721 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGT
5' ss Score
9.8
3' ss Seq
GAACTTTGATCCCTATCCAGGTC
3' ss Score
7.23
Exon sequences
Seq C1 exon
GTCAAAAGGGTGATGAAGGATTACCTGGCATTCCAGGAAACCCTGGCCTTCCAGGTCCAAAGGGTGAACCAGGCTTTCATGGTTTCCCTGGTCTGCAGGGTCCCCCAGGCCCTCCTGGTTCTCCAGGTCCAGCTCTGGAAGGCCCTAAAGGCAGCCCTGGACCCCAAGGTCCTCCTGGGAGACCAG
Seq A exon
GTATGTACATGAGTGGTAGGGGAATGGTCTATTTATTAGTCCATTTTTGCTGGCAGGTTATTCAGTCTTCAGGATGTTAAAATCTGCAATCCAAAGAACTTCTTAAAAAGAAATAGCTTGTTTTATTCCTGGCTCCATCCATTTCCATGGCATCTAATAATTCTTTTCAGTAATGTATTTCATCATTTACTTAAAGTTGAGCTAAAACAAACCAACTTGGAGGAAAAAAAGGAAATAGTGAATTTATTAGTCTTTTTATTAAAATAAAGCTATACTGAGGGGAAAAAAAAACTATACTGATAACCTGACAGCAAAATGCAAGCTGCGTTTTTAATGTGAGCTGCTCAGCATGTTATCACAGAAATCATTTTAGTGATCACCCAATAGATGCTTGTGGTCCATACCAAAAATGTTGCTATGGTTCTGTCATATGATCAGCACATGTCACTAAGCACAATAAAAAAATTTATCTTCTATAGGAGCTAGGCAATCAAATTTATCTTCAACATCACAGCATGATTAAATTGAATAGTGATCTCTTCATACCAGCTTCATGTCTATACCTCATTTGTCTTGTGTTAACTGCTCTAATAGTCTCAGTTTTGCATCCAATGTTCACTTTTCCTTTTGTGTTTGTGCTGTTTCATTTCATTTTACTAAGTTTGGAAATGCTCATTTTCATTCTGGATTAATGTCGCTGAGCCCAATCGCTGAAGATAGATTATTAACAGATACTTGAGACTTAATATTCAGTTTTTTAATTTCTAATTATTGAAAATTTGGCCCTCATTGATTTTTTTAAAGTAAGATAAATGTAAAATTAAAGAAACAAAAAAATTGCCTTTTTATCCTTTGAAGGTCTGACTCATTTTTATAATGTATTTAAAAGTGCAAATTTCCATAAACTCTGAAGTGATTGCAGTCAGTTTTAATAAGATATTCTGTAAAAACATGAATCAATGGCATCACATACTTTGTTCAGAAGATCATTTTCAAAACCAGATTTTATCTGATCTGACTATTTATAGAAGGTATAATTTATAAAGTTTTCCTTTGCTTTACTATTGAAGAAAATCAGTGAAGCTCTCAGCTATGTTAATTATCTGGCATGTAATGTAAAGCATTGACACGAATATCTTGCTTGGTTATGCATGTAATAATTCAAATAAACCAAACTATTCTCCTTTTTAGTATTTTAATCAGCACTGTGGCTATTTATTATCAGTAATGGAGTTCAATGTTGAAAATTATTTTGAAATATGTCAACATAAAGGCATCATTCATAAAAGTTTTTTTAAATTACCATTTCTAAAAGAAATAATAACAAAAGTAGTCAGAAGAAGAACACACATCTGATGAGTATTTGTAACCTTTCAACATGTTCATAAACTACAAATTAAAATGGAATTTTAAACCCAGTTGCTCTTAGAATTGATTGTTGTCTGCACTTATAGTAATGATTATTATAAGAATGATTTTTGGCTTTTCAAAATATGTCACATGTGCTGTTTTTATTTTAATGTTGATGTGAAGTGGCAATAATTTGGTTTATATACAGATGCATGAATATAAACTTGCAGGGTATTCTTTTATTGAATTAAAGTTTAACTTGAAAAAAATTAGTGTAATGCTTTAGTTTCTTGATATTTCTAACAATTTTGATATTTTTCCTTTTTGTTAATGATGACATTGGGCCTTGGTGAACTTTGATCCCTATCCAG
Seq C2 exon
GTCCTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014575:ENSBTAT00000019400:42
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=PD(76.7=73.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
No conservation detected
Rat
(rn6)
No conservation detected
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]