GgaINT0046088 @ galGal3
Intron Retention
Gene
ENSGALG00000002552 | COL3A1
Description
NA
Coordinates
chr7:600419-601307:-
Coord C1 exon
chr7:601216-601307
Coord A exon
chr7:600459-601215
Coord C2 exon
chr7:600419-600458
Length
757 bp
Sequences
Splice sites
5' ss Seq
CTGGTCAGC
5' ss Score
3.85
3' ss Seq
TTTTGGTAGCTTCCATATACGCA
3' ss Score
-5.73
Exon sequences
Seq C1 exon
CAGGTTGCAATGGTGCAAAGGAGTGGTCCATACAAACATGATGGACATTCAAGCACAGCTTCCTCTCCCTTGAGTCTAGGACCTGCTTTCTG
Seq A exon
GTCAGCAACTAGAGTGCAGGATTTTTTATTTCAGGACTGAAATCAACCCTGTTGAATCAGTTCTGTCGTTCCTGATAACAAAGAACATGTGGGCTACTTTGTTCAGTCTTCACTTTATGAGAGTTTGGTCAGCCCTGTGGAAGCTGTCCTGCTGACCTTGGGTAATGGATAAGGAAACTGCACCTTGAAAATCCGAGGCAGTTTCAGCTGAATATCCTTTGCTATCTCTTTCAACTGAATTTGTAAAAAAAACTGTTCTAAAATATGAATTAAGATTCAGATATTAATCTATAAATAAATCATTAACTGAAAAAATAGATAATCTAGGAGATTAGGTCTGAAAGACAGTTAAAATTAACTACATCATTACATTTATTAACATGCTTTTTTAGTGGACTGACAAGAATATAAGAAAACTGTCCCTTGTAGACTTACTGCATTTAGTGGCAGAACTCTGCTGACTTCGTTAGTGCCAGGTTTTTACCTAGAGCAGATGTGCACACTTCATGAATGCACCATAATAATGTAGATGAAAGGCTGATCAAAAAAACAAAACAAAACAAAAAACAAACCCTCATCTTCTAAATAATGATGAACAAGAATAAACAAAATGTGTTTCATAAATCTATTTTCAAATATTTAAATGTCTTTTCATCTTGTTTCATTTACATATATTCAGTTTTCGGTTTGGTTTTTGTTTTCTTTCTCAACTTAATTAATTTTCCCTTTTTTTTTTTTTTTGGTAGCTTCCATATAC
Seq C2 exon
GCAAGGCCCCAAGGGAGACCCAGTAAGTAAAGGGTTTTTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002552:ENSGALT00000004033:5
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=PU(11.8=19.4)
A:
NA
C2:
PF0139113=Collagen=FE(25.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
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]