BtaINT0042028 @ bosTau6
Intron Retention
Gene
ENSBTAG00000027020 | COL5A2
Description
collagen, type V, alpha 2 [Source:HGNC Symbol;Acc:HGNC:2210]
Coordinates
chr2:7262814-7263789:+
Coord C1 exon
chr2:7262814-7262867
Coord A exon
chr2:7262868-7263690
Coord C2 exon
chr2:7263691-7263789
Length
823 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGT
5' ss Score
10.47
3' ss Seq
TGCTCCTGTCAACTCTGTAGGGT
3' ss Score
6.69
Exon sequences
Seq C1 exon
GGTCTGACAGGAAATCCTGGTGTCCAGGGTCCTGAAGGAAAACTTGGACCTTTG
Seq A exon
GTAAGTGATTTAAACAAAAGTCCACCACCATTAATATTTCTCAATGGACACGCAGCTTAAATGGTAAGAGCCTTAGTTAAGGTTAATGTATGTTGAGCAAACTTTGGGAGATAGGGAAGGATGGGGAAGTCTGGTGCACTGCAGTCTATGGGGTTGCAAAGAGTCAGACACGACCTATCAGCTGAACAATAACAATGTTTTTGATAATGTGGGTGCTGATCATGTCTGAAATACACCCTCCCCTCCTGGAAGCAAATCCTAAGGCTCTGATCATTTTCAAATTGACCAAAAATTGATCACACATTGAAATAAATGTCGGAGATTGGGATTGCTTCTCTGACATAAATGGAAAAGTTGAAATGATGTATTTATGAATATTGGTAGAATTTGTCTGTTAGTAACAATCTCATTTCTTGATATCCTCCCAATCTTATACATTTAAGAGATAAATAGGTATTAAGTTTGATAACTCATATATTCTGGGCCCTTCCTTTGTGTTGTATATGTGAAACACAAGTCCTGAGTTTTAATTACCACACATAAGAGTAAATGAAAGAAGAGAAAGATTTCCCCTATTAATATGAGCGTGTAAAGAGATATAAAGATGAAACTTGTATATAGAATAAGAATTAAGTCTCTGTTCTAAATATTAAAATATCTCAGCAGTTTTTTTTAATACTCAACTATTCTGATTCGCTAACATAAAAATGTAGCATAATTTAAAGCTTATACATCTTTTATAGTGTGTGAAAACGAAATTTGGGCGATGTGACGTGTATAGAGAACTGATGTGAAACTTGCATTGCTCCTGTCAACTCTGTAG
Seq C2 exon
GGTGCTCCAGGAGAAGACGGCCGGCCGGGTCCTCCAGGCTCCATAGGAATCAGAGGGCAGCCTGGGAGTATGGGTCTTCCAGGCCCCAAAGGTAGCAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000027020:ENSBTAT00000038684:25
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(28.8=100),PF0139113=Collagen=PU(3.1=11.1)
A:
NA
C2:
PF0139113=Collagen=PD(8.5=15.2),PF0139113=Collagen=FE(50.0=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]