RnoINT0040120 @ rn6
Intron Retention
Gene
ENSRNOG00000020525 | Col5a3
Description
collagen type V alpha 3 chain [Source:RGD Symbol;Acc:70922]
Coordinates
chr8:21821178-21823819:-
Coord C1 exon
chr8:21823676-21823819
Coord A exon
chr8:21821292-21823675
Coord C2 exon
chr8:21821178-21821291
Length
2384 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
TCCTTCCATTTCTGCTGCAGACC
3' ss Score
9.82
Exon sequences
Seq C1 exon
GTCACTAAAGAAGAACCAGAAACACCTGCCCCTCGTCGACGAAAGGGCAAAGGAAAGAAAAAAGATCGGGGTCGCAAGGGCAAGGGAAGAAAGAAAAACAAGACCTCAAGACTGAGTCCAACCCCAGGTGCCCCTGAGAACCAG
Seq A exon
GTAAGAACCTGGAACCTCCTGCTTCGCTCTTGGCTGCCTGGTGCCCATTCACCTCTAGCCCCCATCTTTGTGTTGGTCCTCAGGGCCTGACTCCTGAGGTCTGATTCTCTCAGCCAAAGGGGATGTCAGGTCCTGTGTAAGAGGCTCTTTCATGTCCGTTCCACACTCTGTACTCACGGGGAGCTGGAGGAGCCACCTCTGAACACGAGGACGCCATGATTAGAAGGGTCATAGTGGAGTTTTAATGAGGGGACTGTCAGCCAGGGTAACTGGTTACAGGTGCACTGGTTATTGTGTCTGTATGTGGGGTTCACTGTGGGGGCCACTGGTGGGACATTTTCCTTTGACTGTGGCGCTGTTTGGAAATTCATCTGGAGGTTCTAGCAGGGAAGCACGAATAATCCCGACCCCTGCCAGGGAAGGTAATCCTCTTAGAGCTTGCACCTCTGGGAGTGATGCATGAAGGGAGGAAGGGGACAGCTGCCTAGCAAGCTAGACCAGCCAAGTCAGTCCTGGAGACCAGTGGGATGACAGATGTCACATCCTGATCACTCTCATCACTTCTTTTTTAAAATTTTATTTATGTACGTTTGAGTATTCTTTGTGTATATATGGTGCATGCCAGAAGAGGACATCAGATCTTGTTGTAGATGGTGGTGAGCCACCGTGTGGTTGCTGGGAATTGAACTCAGGACTTCTGAAAGAGCATCCAGTGCTCTTAACCACTGAGCCATCTCTCCAGCCCCACCCTCACTTCTTGAGGGAACTAATTAGGATTGCTGGTTGAGGAGGTTGTTCATTAAGGTGAATGAACAAGGAGTTCCTAGTTGGAGGTCTCTAGGGCATGGATGACCCCTAACGGTGGACACAAATGGAGGGCCCACAGTTAGCCTTCACATTCACTATTCTTGCCTTCCCGGAGATCAGGAAACCACGTGCGTACAGGTAGTTGGGAGAGTGGCTGGAATCTCAGATGAGGAGCCAGTGCCCGCCCCGACCTCCTTCTACAAGGGAATGGCACAGGCTGGGCCTTGAGGGTCTTTCATAGTTACAGTTGCCTTTGATGAAGTTGACAACACTGTCCCCTTATGTGGTCACAACAGCCTGTGATTCCAGTTCAAAGGAATCTGACACTTTCCCCCTTCAGGGGACCTGCGTTCACGTGACACGTGTGTGAGTGTGCACGCATGCACACATACATACGGATTAAAAAAAGAACAAAACCAAAAATCAAAATCAAATCAGCAAAAAACCCCCTATCCTTAAAGCATTTCGTCCAGAATTAAAAGCAGAGAAAGCCCAGGATTCCTGCTTGCTTGCTCTCAGCTAGCATGTGCCTTTCTTATACTGCTCAGAACCTCCCGCCTAGGGAGGGCCAACTGCAGTGGGCCGGATCTTTCCATCTGACAACCTCCCAGAGACATCCCACTAGTCCACCTGATCCAAACACTCAAAGACGCCCTTCCCGGGTGACCGTAAGCTGTGTTGGGTTGACGTTAAAATAAGCCAGTGCACTATTTGAAGGTTAGAGGTCAAGGGTTACTTATTAGGGAGATTGTTAGAAGACACAATGGGATCACTGTTAGTGGAATAATTGGCTGAGGATCCTGGAGAGGGTTCAGTATTTGGGGGAATCACTAAATAGTGATTTTTGTTGGATGATTCCACTACTTGGGGGCATATGTGGGGTCCTTGGATAGAGGCTTTCTGTTTGGAGCCATTGTGGGAATCATAAAGGCAGGGCTCACCTAGTAGTCATTGGTGCTTGGAATAATTTGGGTTAATTTTGTAGGTTATTGGCTGGTAAATTACTAGGAAAGGGTCCCACTCAATAGTTGGGTCATTGCTTAAAGTCCTTGGTTGGAGGAGTCATTGGTTCTGATTAGATATCAGTTCTAGATCTTTCTGTCCCATAGTATGACTACCAAGGTTCTGACCTAAACCCCTGTGGCTTTCTTCCTCTGCCTGACCCAGTTCTTTTGCAGCTGTCTAGGCTGGAGGAACTGCAACCCGGCTGGCTGACCGCTGAGCTATCAGGGGAGAAGACATGTGGGGCTGGGCTTCCGGGAGTCTGGCCCCGAGTGCTGGATTTGACTTTAACCACTGGGCCCTGGAGCCAATCCAGTTTTGCTCCCAGGCCTGGGAGGCTTGGCCCTGCTGTGTTCCTCCTGTATCTGAGGAGGTTTCCCCTCTGGCCACCTTGGACCAGTTGTACGGGTCACTTGCCTTTCCCCCACCAGCCTCTGAACTTGGTGGGAAGCTACCTCTGTCTACCCACCCCTGAGCTGGGGATTCCCCTAAGGGAGAGCCCTGGCTCCTCCTTTGTTTCCTCTGTCTTGATTGGCCTCATCCCAGATCTGACACTCCTTCCATTTCTGCTGCAG
Seq C2 exon
ACCTCCCTCCACACCCCTGAGACAGAGAAGCCATCGCCCCATCTGCCTCCAACTCCCACACCTTTGGCCATCACCACCACTGTCACGATGGGAGGAAATGCCACAGTTTTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020525:ENSRNOT00000027897:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.965 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
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]