DreINT0050087 @ danRer10
Intron Retention
Gene
ENSDARG00000101816 | col5a3b
Description
collagen, type V, alpha 3b [Source:ZFIN;Acc:ZDB-GENE-110728-4]
Coordinates
chr1:58569386-58572166:-
Coord C1 exon
chr1:58572083-58572166
Coord A exon
chr1:58569443-58572082
Coord C2 exon
chr1:58569386-58569442
Length
2640 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGA
5' ss Score
6.8
3' ss Seq
ACACTGACGCCTGTGTTCAGCTG
3' ss Score
4.97
Exon sequences
Seq C1 exon
TTTCAGTCTGGTGGTGATGCTCGTCTGGGTCCTGTAATCTCAGCTCAAGAAGCTCAGGCTCAAGCTATCCTGCAGCACACTAAG
Seq A exon
GTCAGACTCTACACCAACTCTACACTGACACTACTGATGCTGAAGCACCTACACTAACTATACAACATTACTACACCAACTCTACAGTATTACTACACTAACTCTACAACATTACTACAGTAACTCTACAGTATTACTACACTAACTCTACAACATTACTACAGTAACTCTACAGCATTTCTACAGTAACTCTACAGCATTACTACAGTAACTCTACAGTATTACTACACTAACTCTACAACATTACTACAGTAACTCTACAGCATTACTACACTAACTCTACAGCATTTCTACAGTAACTCTACAGCATTACTACAGTAACTCTACAGTATTACTACACTAACTCTACAACATTACTACAGTAACTCTACAGCATTACTACAGTAACTCTACAGCATTACTACACTAACTCTACAGTATTACTACAGTAACTCTACAACATTACTACAGTAACTCTACAGCATTACTACAGTAACTCTACAGCATTACTACAGTAACTCTACAACATTACTACAGTAACTCTACAGCATTACTACACTAAGTCTACAGCATTACTACACTAACTCTACAGTATTACTACAGTAACTCTACAACATTACTACAGTAACTCTACAACATTACTACAGTAACTCTACAGCATTACTACAGTAACTCTACAGCATTACTACAGTAACTCTACAGCATTACTACAGTAACTCTACAGCATTACTACACTAACTCTACAGCATTACTACACTAACTCTACAACATTACTACAGTAACTCTACAGCATTACTACACTAACTCTACAGCATTACTACACTAAGTCTACAGCATTACTACACTAACTCTACAGCATTACTACACTAACTCTACAACATTACTACAGTAACTCTACAACATTACTACAGTAACTCTACAACATTACTACAGTAACTCTACAGCATTACTACACTAAGTCTACAGCATTACTACACTAACTCTACAGCATTACTACACTAACTCTACAACATTACTACAGTAACTCTACAGCATTACTACACTAACTCTACAACATTACTACAGTAACTCTACAGCATTACTACACTAACTCTACAGCATTACTACACTAACTCTACAACATTACTACAGTAACTCTACAGCATTACTACACTAACTCTACAACATTACTACAGTAACTCTACAGCATTACTACACTAACTCTACAGCATTACTACACTAAGTCTACAGCATTACTACACTAACTCTACAGCATTACTACACTAACTCTACAACATTACTACAGTAACTCTACAGCATTACTACACTAACTCTACAGTATTACTACAGTAACTCTACAACATTACTACAGTAACTCTACAACATTACTACAGTAACTCTACAGCATTACTACACTAAGTCTACAGCATTACTACACTAACTCTACAGCATTACTACACTAACTCTACAACATTACTACAGTAACTCTACAGCATTACTACACTAACTCTACAGCATTACTACAGTAACTCTACAGCATTACTACACTAACTCTACAGTATTACTACACTAACTCTACAGTATTACTACAGTAACTCTACAGCATTACTACAGTAACTCTACAGCATTACTACACTAACTCTACAGTATTACTACACTAACTCTACAGCATTTCTACAGTAACTCTACAGCATTTCTACAGTAACTCTACAGCATTACTACAGTAACTCTACAACATTACTACAGTAACTCTACAGCATTTCTACAGTAACTCTACAACATTACTACAGTAACTCTACAGCATTTCTACAGTAACTCTACAGCATTACTACAGTAACTCTACAGCATTACTACAGTAACTCTACAACATTACTACACTAACTTTACAGCATTACTACAGTAACTCTACAGCATTACTACAGTAACTCTACAGTATTACTACAGTAACTCTACAGCATTACTACACTAACTCTACAGCATTTCTACAGTAACTCTACAGTATTACTACAGTAACTCTACAGCATTACTACAGTAACTCTACAACATTACTACAGTAACTCTACAGCATTACTACAGTAACTCTACAGCATTTCTACAGTAACTCTACAGCATTACTACAGTAACTCTACAACATTACTACAGTAACTCTACAGCATTTCTACAGTAACTCTACAGTATTACTACAGTAACTCTACAGCATTACTAAAGTAACTCTACAACATTACTACAGTAACTCTACAGCATTACTACAGTAACTCTACAGCATTTCTACAGTAACTCTACAGCATTACTACAGTAACTCTACAACATTACTACAGTAACTCTACAGCATTTCTACAGTAACTCTACAGTATTACTACAGTAACTCTACAGCATTACTAAAGTAACTCTACAGCATTTCTACAGTAACTCTACAGCATTACTACAGTAACTCTACAGCATTACTACAGTAACTCTACAGCATTACTACACTAACTCTACAGCATTACTACACTAACTCTACAGCATTTCTACAGTAACTCTACAGTATTACTACAGTAGCTCTACAGTATTACTACAGTAACTCTACAGTATTACTACAGTAACTCTACAGCATTACTACAGTAACTCTACAGTATTACTACACTAACTTTACAGCATTCAGTTGAGTTTGTGTTTGCTAACACTGACGCCTGTGTTCAG
Seq C2 exon
CTGTCTCTGAAGGGGCCGCCAGGACCGCTGGGACTAACCGGACGTCCGGGACCACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000101816:ENSDART00000170580:11
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:
NO
A:
NA
C2:
PF0139113=Collagen=PU(29.3=89.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
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]