GgaINT0043057 @ galGal3
Intron Retention
Gene
ENSGALG00000004286 | COL13A1
Description
NA
Coordinates
chr6:12112058-12113645:+
Coord C1 exon
chr6:12112058-12112114
Coord A exon
chr6:12112115-12113579
Coord C2 exon
chr6:12113580-12113645
Length
1465 bp
Sequences
Splice sites
5' ss Seq
AAGGTTTGT
5' ss Score
7.81
3' ss Seq
CCTTCTGGTTTGATCTCCAGCTG
3' ss Score
8.25
Exon sequences
Seq C1 exon
GAGTACCTAAGTACCACCCTTGCAGCCCTGCGCTCTAACCAGATCCTTACGCTGAAG
Seq A exon
GTTTGTGGGTAACGGTCTGACAGACCAGTTTTGATGCAAAGGCACAAGGCATCCAATATTGCATGTTCCTCTTGCCATTGGGTCCAGAGGGGCAGGGATGGCTGCAGGAGGCTTCAGGCTCTTTCTCTAAATGATCCTACTTGCACCCAAGTCCATTGTTAGATCTTGTCTCTGTTTTCGGAGGGACTCTTACTGCTTCCCTCCATTTTCCCCTTCACCTTTTCCAGCATCCTGCCTCTGCTTCCCTGTAAGCTGTGTAATATTTCAGAATCAGTATATTTGAACACGGCCACCTGAGCAGAGGGTGGCAATGCTGCACTATTGGATGGCCGCTTCCCTTTGCAACAAGACTGTGTCCTAGCTTTTGCAGCCAGAGCAAGGAGTGGCATTTAAAGGGACTAAGCAGCACTGCTGGGGTGCGCGGTCACTGTGGTGGGAGACCTGCAGGCACACCTCCGGGATCCGAGCACAGCTCATGTGGAGAATGGCTGCGCACAGGGGCACAGGCTTTTGTGCTTGAGCACAGAATGCTCCTTTCTCTTCTCCCCGTGTAAATCGAGAACAGCTTCAATGGAAAACTGATAGGAACAGGAAAGCGGATCAGGCCAGAGGAGCATTCCTGGGCCTAGAGCTGCCGTGGTGACTGCCAGGCTGACAGCAGCGTGTATGCAAGTGGAAACTGGATACTGCAGGAGGATGAACAAATGCTCCTGAGCTTTAGTGCATTTGATTGCTGTGTGTCCGGGTCAGCTTTGTGCACTGGTGCAGCATTCCTGACTATAAGCAGTTGGAAGCTGCTGTTACTGTTAAGCGAGAAAAAGCAAAGTGCAGGCTACCAAGGCAGTACCCTGCCCAGGGTTCAGAGACACCGAGTTCTTGTCTTCTCCCTTGGCAGTGTACATGTTCCCAAATGGACCGTGCTGGTGCCCTTGTGCTGGCCCTGAGGCCCTCTGCTGACCCCAGCCAGCCACACTGCTATCTGCACCCTGGAGAAGGGTGAGGCCCCCGGATACTTTCTTGTAAGGGAAGAAGGAAAACAATGGGAAAGCACGCTTGGAAAAAACTTGGAGAAGATGAGCTTTTTGATAGCTGCCTCAGATCTGATGATGAGAACTGAAGAGCAGAGCCAGTGTGGGGGTGTCTTGCAATAAACATTGCCTGGGAGTGGAGCTGAGTCAGAAATCCCTTGGGTGAGCTCTCTGTCCGAGCTGAGGAAGCTGTAGCAGCTCTGTGCTGATAGGCCCTGGTTGGCTCGGACTGGTGGACAGCAAGTCCCCTGTGAGCAGTGCGCAGGAGCCTGGAGGTCTGCCGGCAGGTAACTGTACCACGCGCGGCTGCACACGGTCATTGACTTTCACAGCAATCTCTCTGTTCCCCTTTTCTCTGTTCTTTCCCCTGGCTGCTCTCTGACTCTTGATGCCCTAATGGCCTCCTTTGCCCTGTGACCTTCTGGTTTGATCTCCAG
Seq C2 exon
CTGTTGCCTCTCCTCAATTCAGTGCGGCTGGCTCCACCTCCGGTCATAAAGAGACGCACTTTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004286:ENSGALT00000006816:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.763 A=NA C2=0.909
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PU(7.4=18.2)
A:
NA
C2:
PF0139113=Collagen=FE(70.4=100),PF0139113=Collagen=PU(13.6=20.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
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]