GgaINT0068161 @ galGal3
Intron Retention
Gene
ENSGALG00000008141 | COL4A5
Description
NA
Coordinates
chr4:14036559-14037464:-
Coord C1 exon
chr4:14037296-14037464
Coord A exon
chr4:14036652-14037295
Coord C2 exon
chr4:14036559-14036651
Length
644 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
CTTCCTCTTTTCTGTCTCAGGTC
3' ss Score
12.5
Exon sequences
Seq C1 exon
GGCAGTGTTGCATTCAAAGGAGAAATGGGAATTCCAGGTGACCCAGGAGCACCAGGTCTTCCTGGAGACAAAGGACTTCCTGGACCTCCTGGTTTTGGTCCACAAGGTTCACCTGGTGAAAAGGGCATCCAAGGTGTATCAGGTCGTCCAGGGCCTCCTGGAGTTCCTG
Seq A exon
GTGAGTTAGTCTCTGTGTGTTCTTGAAAAAAAGCTGTAAGTTTTTATCCATGGGCTCTGGATAGTTCTCAGAACATAATGCTGCATTTAAACTTTTCTCAAAGGCATTGTAAGACCTAGCATTTGTATACTCCCTTACTGAAGGTCACCACAGAATTGCAAAGTGAGCTGAAATTTTATATTACTATAGGAGTTTGACTTTCCCTTCTATTCTGGCCTCTAGAGAGAAGCTTCTAATTTTTAATTTACTTCAGTAGAAATGCACTGTATCTTCCATCTGGCTTATGCTTAATTATGGTGTGACCACAACTGCTTTTAGAAACAAGGGTTTGCTTTTGTTACTTCTTTGTCAGCTGCACAGATCCTAAGCAAGTTGTACTGAAGTTAGCTATGGAAAATACTATTCACATCATGGTACCTTGGAGGAAGCTGAAAAATGATCTTACAGAAAACTGTAACATAAACAATGCTAAGCCCATAAGGACTGTATGCGGCTCAGGGCCAGATAGTCCAGTGGGTAAAGTCTTTGTGATGTTTATGTTCTTTGTAAGCTTGGGATATGGCTAGCAACATTTCTTTCTACTCAAATAAATACAGAGAAGAAAATTCTGTTGATTGATATAAACTTCCTCTTTTCTGTCTCAG
Seq C2 exon
GTCCAAAAGGTGACCCTGGTCAGACTATTACAGAACCAGGAGTTCCTGGTCCTCCTGGTCCTCCAGGAAGAAATGGTGACCCAGGTCTTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008141:ENSGALT00000013221:25
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=PD(35.4=40.4),PF0139113=Collagen=PU(80.6=87.7)
A:
NA
C2:
PF0139113=Collagen=PD(17.7=34.4),PF0139113=Collagen=PU(45.8=68.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTTGCATTCAAAGGAGAAATGGG
R:
CTGGAAGACCTGGGTCACCA
Band lengths:
257-901
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]