BtaINT0042037 @ bosTau6
Intron Retention
Gene
ENSBTAG00000027020 | COL5A2
Description
collagen, type V, alpha 2 [Source:HGNC Symbol;Acc:HGNC:2210]
Coordinates
chr2:7273116-7275393:+
Coord C1 exon
chr2:7273116-7273169
Coord A exon
chr2:7273170-7275339
Coord C2 exon
chr2:7275340-7275393
Length
2170 bp
Sequences
Splice sites
5' ss Seq
AGAGTAAGT
5' ss Score
9.35
3' ss Seq
TGTGTTATGTTCATTGACAGGGT
3' ss Score
7.79
Exon sequences
Seq C1 exon
GGTGGCATAGGAGAAAAAGGTGCTGAAGGTACAGCTGGAAATGATGGAGCAAGA
Seq A exon
GTAAGTGAAATCATTCCTTTCAGTGGCAGGGCTAGGAATCAACGTCATCATTACTGTATGAGTCTGCCTGAACTTTCTAGAATAAGCCTCATGTTCCCATGGTGGTCAGGATTTGGGAGAATGATGAAATCTGAGATTTGACATTGATTGCCTGTGGATATTCATTTGCTTACCTTGAATTAGAACAAGCCAAAAAAGTAAAGTCATTATTGAGAGAATGAAATAAGATACATTTTTACTGTGCATATGAAATTGATGCTTTAAGCAGTGGGGCCCTCTTTTTCCTTCTCTGTCATATTTATTCCATATGCAATGTTTCTTTTTATTAAAATGCTAATCTAGTGAGTCATCTTAGACTTCCTTCCAGTATAGGCAAGTAGAGTTTTACAGAGTAACCAAAGGTGTGATAAATGTTTCTCAATATGCTAGATGTCAGGGGTGAGAAAATTACTGCATGATGAATCATCATTAATGAGACTGAACAAGTGAAATGTAAAGAAGGATTGCTTAATACCCTTCCAGAAATTGATGTTTAACAAGCTTTGTGTCCTCAAAACTAGAATGTATTTGCAATTCTAAGGATAATCAAACGATCAGAATGAAAATATGTTTTCAGACATGAATGTTTCTCTCAGGTAAGAGCAGATAGTTAATCACTCAGATAGTCAACATTTTCTGAAAATACTTCCTGATATTTGCTAAATAGTTTCTGATTCAGTACGACTTAGTTTGCTGGTAGTTGTCATGCTGTACCCTGAAAAAGCAGTTGTGCTATTAAACAAAGAGATGACACTGCGCTGCTGTTAATATTTTGATTCTGCCCATTGAGTCACCATTAATACACTGATTATATTAACCTTTGATAATAAAAGTATATTATAGGGAAGTTTTAACCTTATTATAATGATTGCTTTTTTCTTTTTCTGGAAAGCTAGTTAAAGGTGAAACAATTTAGCAAACTATGAAATCAAAGTATCTTTGCCTTTTAATTAAATCTAACATTCAATTCAATATTTCAAAAGTGGTCTAAATGAATCTGGTTTATTGTTTGTGCTTCATATCACAGTTGGTCTGGAGTGCACAGTAAATAATGAAGAGCTGTTTGAAGGAATGATGTGCTGTCAGTTTATTTTAAGGAGAAATATCCATCTATTGCTCCTTTGAACTATTGAATACTTTGAAACTGCAGTGCAATAAGATCAAGACTTAAGCAATGACTGCTTAATTTTTAGTGAGGGAAATATGTTGTTCTAGGCAAAAAGCAGAGAATTTATCTCATATAAAGGGGAAAAAATTTTAGTGTAGTCACCTTTATATTCAAACAAATCTTTTAAGGAAGTGTATTAGGTGAATGACAGAATATTGTTTCATTATAGATCTAGAGAATTTAAGATCACAGTTTTCTCATGTTCTTGTCTTAAAATACAATATAAAATTTAAAAGTCATTTTATTCCCTAAGTTTCTTCTGTAATGCATACATAAATTAAATGGCAAAGGAATATCTGAGTTTCTTGTGAAAAAGCAATACACAAATATCAGAGAGAAAACCTGTTTTAGGAAGGGCTCCAATGCTGTGCAGCAGTTTAAAAACTGTGCTTGTGTGTCAAGAAAACCCCACGTGTCGCTCTGCTATACTCTGAGCCAAAGAACACCCTCACCTTCAGTGCAGTGAGGTGGTTCCATTATCATCACAGAAGAATGTGGAAAACTGAGGGCTTTAGCACAATTTCACTTTTCTAAAAAATAAAGGAATGATATTTCACTTGTATAGTTTAAGAATAAAGTATGCTATACAAAATAAGAAAAGCCTCTTCAATCTATTGTCAAATTTCAAATAGAGATTAGTAAAATTAAACAAGCTAAGAAACACAGAAACCTTGTTGAAGGATAGCATTGGTTTCAGACTAATGTTTGAAGACAGTGTTATGTACATAGATAAGTGAGTTGGATGAAACAGATTGAAATGTTTTGTGGAGAAAATCCACTGGGAATTGTTTTAGACTAGATGTAAAAATATTGAGAATATACAGATTGTATCATTTATTACAGGTGATGTTTTACAAAAGCAGTCATCTGTAACAAAATAGTACCTTCTTGGTTTGTTTGTTTAAACGTGGAGATTTCTGCGCATTCTCTTCCTCAATATGCCTGTGTTATGTTCATTGACAG
Seq C2 exon
GGTCTTCCGGGTCCCTTGGGCCCTCCAGGTCCTTCAGGCCCTACTGGAGAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000027020:ENSBTAT00000038684:34
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=FE(20.7=100),PF0139113=Collagen=PU(9.5=44.4)
A:
NA
C2:
PF0139113=Collagen=FE(20.7=100),PF0139113=Collagen=FE(20.2=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]