RnoINT0040064 @ rn6
Intron Retention
Gene
ENSRNOG00000003736 | Col5a2
Description
collagen type V alpha 2 chain [Source:RGD Symbol;Acc:70921]
Coordinates
chr9:52135255-52136635:-
Coord C1 exon
chr9:52136591-52136635
Coord A exon
chr9:52135309-52136590
Coord C2 exon
chr9:52135255-52135308
Length
1282 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGT
5' ss Score
10.08
3' ss Seq
TCATTTGTTTTCAATTTTAGGGT
3' ss Score
12.66
Exon sequences
Seq C1 exon
GGTCCTATTGGCCCAAGGGGACCTCAGGGTTTACAAGGACAGCAA
Seq A exon
GTAAGTGTCTTTTATAATTAATTTATATGCTGTAATAAAGAAGGCTCAGGACTCATTACTACTTTGGACTGAACATTAAACTGTAGAATTCTCACTTGGAATGACATCTACCAATTTTTCCTACTGATTTAGAAGCACATGTAGCCTTCTTTGTTGATAGTTTATTTTTTTTAAATAATGTGCGTGTGTGCATGTGCATGTGTGTGTGTGTGTGCATATGTGTGTGTGTGTGTGTGTGTGTGTATGTGTGTGTGTGTAGACTAGAGGCTGAAGTCATGTATCTTCATTGTTCTTTGCTTGATTTCTTGAAACATGGTCCCTTGCTGAACGTGACCACTCATTAGTTTAGCGAGTCAGGTGACTAATTTGCTCCAAAGATGCCCTGTTCCCATTTCTGTTTACCAAGCACTGGGATTAGGGTGGCCACCATATCTGCCCAGCTTTCACATGAGTGGTGGAGTGGCCCACAGTGTGATCATTCTCATGATTGCATAGGAAATGCTTAATCCACTGAGATATTCCCTAGTCCTCATAGTTTCTTACTTGCCCCACATATTTGTCATCTGATTTCTTTACGTGACTGCCCTCTAACACTTGGAGTTATGTTATGTGTCCTTGCTTCGAAAAAACAGAACATACTTCTTGTCTTATAACATTCCCATAATTGATTTTTCCAAGTCTCTGGCTTTACAATTAGATAATAAAAGGCCACTTGCAATTAATATTTTTTTTGTGTGAATTAAAGCCAAGGTGGTTATTCTGGGGAATCTTACTTGAAGAATGTTCTAAAACTACATAGTTCCTTCTCACATCTAACAAGTGCAGGTAAAACTATGATGCAGAAATATTTGACTCTTTATAATAATTTAATGGCTATTACCTAATAATATTTCAAAAGAAAAATCTTTACCTTAACCAAGGTAATCACGTTGTCATGATCATTTGTATGAATTGTACTTTATCACATTGCTGAACAAAAAGGTAGTTGCTAATGGTGAGGAAGGTGGTGGTGATGATGGTAAGTACTGTTGTGTGAGCACACAATCTGTGCTAGCATTAGTCTATTTTAACACAATTTATCTAAATGGACCAATGAACTAAGTCTTAATCTTAGTCCAGTTCTTCACATGAAGAAATCACATTATATTCAGTGACAATAATTTATTGGAATTACATATCTGGGAAGAGGCAGAGACCGATATCAACATTGTACCTTGTCAACAGTACAGAAGTTGGTATACTGCTTTCCTCTGATTCATTTATCATTTGTTTTCAATTTTAG
Seq C2 exon
GGTGGTGTGGGACCTGCAGGACCTCCTGGTGAGCCTGGCGAGCCTGGACCAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000003736:ENSRNOT00000005073:9
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(21.9=100)
A:
NA
C2:
PF0139113=Collagen=FE(26.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
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]