GgaINT0043056 @ galGal3
Intron Retention
Gene
ENSGALG00000004286 | COL13A1
Description
NA
Coordinates
chr6:12110228-12112114:+
Coord C1 exon
chr6:12110228-12110254
Coord A exon
chr6:12110255-12112057
Coord C2 exon
chr6:12112058-12112114
Length
1803 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGT
5' ss Score
10.45
3' ss Seq
GTGTCTTCCCTGTCCCCTAGGAG
3' ss Score
11.57
Exon sequences
Seq C1 exon
GGTCAGTGTGCAGAGTACTCCCACAGG
Seq A exon
GTAAGTCATTAGCGTTATTATCGTCGGTCCTGTGCCTTCCTGAATGTTAATCCCCCTTTCGTTTGAATGGCGTTTTGTTGGAAATATAGATCGTTTCATGAACAAGATGCGTCATCCGGGCCTGAGAGCAGCACTCGGCTGATTGATGTGTTTCATAGAAAAGCTGCAGATAAGGACTTCCAGGAGGATGTTGGCTCTTTGCTCTCTTCCTACCCATTTTAGCTGACCCCCAGCTAAAAGCTGTCATGGTTTCTTTCTGGAGAGCCTCTGTGCTGCAGCGTGGTGGGGGGGAAGGTTGGTGTCTCCACCCCAAAACTCAGTGAAACCTGAAGTTTCTGTAGGAGCAGAGAACACCAGCTCAGTCCCACTTCCACAGTCTGCCGCAGGAGGACTGGTGGCAGCAGCCTTTTAATGAAAGCCAGGCTGTTGCCCCCCTTGCCTCCGTGTCCTGGTGTGGCCAGCGTGTACAGCAGCCAAGAGAGGAGAGAGTACATCATGGAGTTTGAGGGGATTACAGGGGCAGGATTTAACCAGCTCTAAAAACAACCGGAGTGCTGAAAATCCACTGGAAATGCATTGGAACAACATCATATGAAGTGGCTGGAATTTGTAATCTGGGTGCACAGGGAGACAGGCTTAAGGGCTTTCTGTTTATTTTTGATGAGCCTCTGGACAATTAGCTGGGCTCTGCTGCCTGTCCCCAGGGGAGCAAGGCCCTGGATGCTCTGCGTAGCAGAGGCAGGAGCACAATCTCAGCTGGCAGCAAGAGAGATGGGAGCTGTGGGCAAGTGCCAGCCTGGGTACAATAATAGCAGGTCAGCTGTGTTTATTTAGGTGAGCCGGCTCACTAGATCGTTATGTTAAAAAGAAGCTAACAACGTTTGCCCAAGCGATGTCCTGGATTCTTGTTACAATCTTTGGCTCCTGCCTGTCCTCAGAGCTCAAGGTGAAAAGCAGGGATGGGACCGGCAGCAACACTGGGAAGCAAAGGTGCAGGCTGTGTATCAGCAGGAGCAAGCTGGGGCTAGGGCATACCAGTTTGGTGGGCTGGGCTGTAGGCACCCTGGGGTGATGCCACAGGGCTGGGACAGCAGGGAAGAGGTTGGTGCTAAAAGCTCACGTCCCAGTAAAGCCTTGGTGATGCCTCTTTGGTTCTCCTGGAGTAGCTCTGGTCTCACTGAGGCAGCAGGATCAGCATTTTAAAAAACGCTTGGGTCCTTCCAAGGAGGAGATCTGCTTATGGGAAGAGTGGCTGCCACTAGATCAGCTCTAGGGTGGGCTGTCCTGGAGTGTCTGATCACAGGCTGCAAGGCTGGTGCTAGTGGTGTAAAGCAGCCCAAAGAGTTGCAGTTCCTTCTCTTCCTCCCAAAATCAAAGTGAGAACGAGCCTTGCTGTATATGTGCCCCACATTTGACTGAATTGCAATTTCTTCTTTCTTTACTGGTTGATGAAGACTTGTCTTCTTTTTTTTTTTTGGGGGGGGGGGGGGGGGGGAGCGGGTGTGCAAGGAGGTGAAAACCACATCCTGAAAAGCCAGAGATGTTGTTTCAGTTTTGTTAGGTCTTTGTTTCCTTAGGAAGGAAATGTAAGGTTAGGATGTATGCCTTGGCTCATGTTGTAGTTTCCTATTTTTCCTTCTGGATGGCCTGTGGCTCTGCAAGAGATGGTCCCAGGCATGGGGCTGCCCCAGAATGCCACAAGGGGCTTAGCACTGGGCAGAGAGGAGCAGCCACACTCTGTCTGCTCTCAAAAACACCATGTGTCTCACTGACCGCCTGTTGTGTGTCTTCCCTGTCCCCTAG
Seq C2 exon
GAGTACCTAAGTACCACCCTTGCAGCCCTGCGCTCTAACCAGATCCTTACGCTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004286:ENSGALT00000006816:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.763
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(6.6=44.4)
A:
NA
C2:
PF0139113=Collagen=PU(7.4=18.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
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]