BtaINT0042022 @ bosTau6
Intron Retention
Gene
ENSBTAG00000027020 | COL5A2
Description
collagen, type V, alpha 2 [Source:HGNC Symbol;Acc:HGNC:2210]
Coordinates
chr2:7219309-7222441:+
Coord C1 exon
chr2:7219309-7219533
Coord A exon
chr2:7219534-7222427
Coord C2 exon
chr2:7222428-7222441
Length
2894 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGA
5' ss Score
8.85
3' ss Seq
TACTCTTTTCTTTTTTATAGGAA
3' ss Score
10.7
Exon sequences
Seq C1 exon
AAGGATATGGTGAAGAAATAGCCTGCACCCAGAATGGTCAGATGTACTTAAACAGGGACATTTGGAAACCTGCCCCTTGCCAGATCTGTGTCTGTGACAATGGCGCCATTCTTTGTGACAAGATTCAGTGCCAGGATGTGCTTGAGTGTGCTGACCCCGTAACTCCCCCTGGGGAATGCTGTCCTGTCTGTCCACATACAACTGGAGGTGGCAATACCAACTTTG
Seq A exon
GTAAGAAGGCATAAGGCCAACTCAGAATTTGTCCAGTGACTTATCTTTATAGTTACAGTGTTTTTTTGCTCTCAGAATTCAGCAACCTAAGAGAATAATTAAGCTACTATTCAGTAGTCTTTGGTGTAATAATTTTACTCACCCACTTTAATCTAACAGTAATGAAAAGAAAGTTATTTCTTCTTAAAAAACAAGGAATTTTTTGGGCTGCATTTAAGTGATTATGTCTAATTTGAGAATTCCTTGTACTACTTAAGATGTTCTTTTGTTATCCTATCCATGCTGGGTGCCTCCAACATATTTGTTGGTTTTCTATGAAGTCCATTAATGTCTAAGAGGAGATCTAAAAACACATTTCTCTTCCTTGTGCCAACTTTGCCCTTGGAAATGGAGTAATAATTTCTAATGTAATTTAGTGCCACAGCACCCTCTGTTACATAGGTTCATAAATGCAGAATGCTTTTAATGTTGGCTAAGAGAAACAAGAGAATGGAATGGGTTTTCTGGAGAAAACAATAATATAAATTATTGGTTCTTAAAGCTTCTTTTTTGGAGAAAAGTGTCTGTGTTTAACCAAGACTGTGTATTTGAGTATACATGTTAGAAAAACTTACATATAAAAGAAACAAGTTCATGTTTATGTGTTTTAGTGAACCAGATAAGATTAATATTAAACTTTTGGGTTATTTGTTTTAGCAGTCATGAATGGAGGCTTGCATGCACCCTTGTCAAGACAGTGTCAAGGCTTTATTTTTTCCCCTAAACTTCACTGCAAATAACAGCAAATATAATGAAGTGCTCAAAAGTATTTTATGGAAACATTACACAGTAATTTACCAATTAGCCTCTTGGATATCATTCAACAGTAACAGTTGGCCTGGAATAAATACCCAAACTTAACTTTTAGCCATGTAATAAGAAAGATTCCACTTTGGTATTCTTGCCTGGAGAATCACACGGACAGAGGAGCCTGGTGGGCTACAACAGGTGGGCTGCACACTACATAGGGTCGCAAAGAGTCGGACACAACTGAAGCAACTTAGCATGCCCACAGTAAGGAAGATATAATGGGAAGAATTAAAAACAGGGCACTAAAGGGCTACCTGAAGTGGGTATGATCTACACAGAATCCCCAGGAGTAAAGCAAAATTAAGCCTGTGGGAATAAGTGCATGTTGAGACAATGGTAGCAAAAAGAAAAAACAGAGCAAAATACACAACCTCCTACAAAAAAAAAAAAAAAAAAATGAGCAAAATACACGACTTCCTGAAAATAGGTGATTTAGGAAAGCCCAATTTATTCCATGTTGAATAATTTTAAAAAGTACTGACAACAGTGTTGATACAAAGATACAAAGATACAAAGGCAAAGATGAGACCGTTTAACTAAATATATGAGATATCATCACAGAACAGATAAAAATTCTAACCAACCCTTATTTCCATTATCACAGAACAATTTAACATTATTAACTGTACCTGACCAAACAATTAGACAAGAACAAGGCATTGAAACATGTATAATATTATATATGAAATGAATCGCCAGTCCAGGTTCGATGCATGATACTGGTTGCTTGGGGCTGGTGCACTGGGACGACCCAGAGAGATGGTACCAGGAGGGAGGAGGGAGGAGGGTTCAGGATAGGGAACACGTGTACACCTGTGGCGGATTCATGTTGACGTATGGCAAAACCAATACAGTATTGTAAAGTAATTATCCTCCAATTAAAATAAATACATTTATATTTTTAAAAAAAGAGAAAAAAAAGAAATTGGAAGTTTAGATATTAGAAAAGAGGAGGTTAAATGATCAATTTATAGAAAATATAATTGTGTACTTACACAACCTTAAGGAATGGAGTAAAAAAATGCTACAAAACAATTTAGTAAGATATTGCAATATAAAATTAACAAATTAATAGATATACTATATACAATTACTTCATAGAAGGTATGTATGTTAGTTGCTCAGTCATGTCTGAGTGTTGTTGAGGCCCTGGACTGTAGCTCTCCAGGTTCATCTGTCCATGAAATTCTCTAGGCAAGAATACTTGAGTGTGTTGGCATTCCCTTCTCCAGGGGATCTTCCCAACCCAGGGATTTGAACCCTGGTCCCCAGCGTTGTAGACAGATTCTTTACCATCTGAGTCACCTATATATGGCTATTATAAATATTATATTTTTATTCCTATAATTCATTCTATGAATATTAATGAATAATAGGAATAAATATATATATTTTTGTATATTACTTCATAGAATGAATAATAGGAATAAAAATATATCATTTATAATAGCAAAATATATGGTAAAGTGGTTAAGGATAAACAAAACAAAATATTTAAGATATATCTGAAGAAAACTTTAGAACACTACTAACTCAAATAATGACTTTAATACATGTAATGTTCCATTCTGTTCTTGGTTAGGAAGACTAAAAGAAAATCAATAATAGTGACCTCTGGTGAGAAGTGAAATGTGGGAAATAGAGAAAAGGGGAGAAGGAAAATTTTCACTGTACAATCTACACCTTTATTAATATATTTTAGGTTTGTTTTTTTAATCATGTGAATGAATAACCTACTCAAAAAAGTTTAAAAACCAAAAATAGAGAATATTGATTGAAGATAATTAGTTATAATTTTAATAGCTAATTTTTTTTCTACATAAAGGTTGTGAAGAATATTCAAATGTCAGAATTTTCCTAAGGGTACGTTATTTTGCCTCTTATGAAAATATTGGTGCAAAATAATTCGGATTTCTATCTACTGGTGACAGGGGAAGCTTTTTAAATTAAATTTATGACTCTATAAAAATTATTGAAATAAATATTGAGATTCTTAATAACTATGTATGCATAAAATAATATATTTACTCTTTTCTTTTTTATAG
Seq C2 exon
GAAGAGGAAGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000027020:ENSBTAT00000038684:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.105 A=NA C2=0.800
Domain overlap (PFAM):
C1:
PF148281=Amnionless=PU(79.1=89.5),PF0009313=VWC=WD(100=73.7)
A:
NA
C2:
PF148281=Amnionless=FE(4.7=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]