GgaINT0125572 @ galGal3
Intron Retention
Gene
ENSGALG00000006958 | COL27A1
Description
NA
Coordinates
chr17:5364643-5366586:+
Coord C1 exon
chr17:5364643-5364696
Coord A exon
chr17:5364697-5366541
Coord C2 exon
chr17:5366542-5366586
Length
1845 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
TTAATTTCTTTTCACCTCAGGGA
3' ss Score
8.93
Exon sequences
Seq C1 exon
GGGAAGCCGGGAGCGCGGGGTTTGCCTGGGCCCAGAGGGCTGCCTGGACAAGAG
Seq A exon
GTGAGCATCCTCAGACCTAAAGTATGTGGGATTCAGAGAATAGCGTTGCATTTTGAAGATCAGTGCACTCTGCAGTGGCGCCTGCGATCTGAAATCCTCCGTTCCCTCTGAATCTGGAAGTAAATGCTTGTATTCACCAGTCAGAACCACACAGAGGAGCTTCCAATGGCTGCAGCCCTGAGACCTTTGCTTCCCATCCCTGCTGACATCTGTTGACCCGAATCACTGCATTGCCTTTTCTTCTTCAGTCTGTTCCCTCACACCCACACACGCTTCAAATGGATGTTAATGCCCCTTTCCCTGCACGCCCCTTTGCATGGGCATGCCCTGACTTGGCTTTTGCTTTCTGCTCCTTTTAAGTGTGTTTTCTTTCAGCTGTGAGACCTGCAGGCTCTGCTCTCTCGATGGAGCAATATGATTTGTAAAAAGAGCACATCAGCTGAAACTGCTGTTCTGCAAAGATTTGTTTGCCCCAGCAGCTCTGAGCCTGCAGCTTTCACCTCTCATAGCTTGGGAAAACCTGAAGCTTCCTTCCAGTTGCAGTCATTAAAACAGGACGACTGCCATTGATTTAATTGTCCTGGAGCTGTAAATACTTTATAGCAGCTTCTGTGGCTATAGCGTGGTGGCTTCCGTGTGGTTTCTTCTCATTCAGGTCAGTGTTTGTCTGGAGTCATGAAACATTTTGCAAAACACACTCCATGAACACACGGGCAGGAGCTCGGTATAATAGCAGTAACCAGCCTCGCTTTTTCTGGGAACTCTTTTGCTTGCCCTCTAAATGCAATTAATGCAAATTAGCTCATTTATTTGCACTGAAATAGGAAAAAAAAATATTCTAGGCAATTTACAAAGGGAATCAAAGCTTCGCATTCCAGGTTCAGGCAGGCATGACCAAGCTGCCTTCAATTTACTCTAGTTAGCGAGTGTAAAAGTAAGACTGAAGACATGGACATGGACTTCGACATGAGCTGTGCTGAAGGACTGTGAACGTGCACTGCCACAGCGCTGCTGTTAGCCCAGGCCAAGGCTGTGAGTTACACCTTTAGAAGTGTGCCATAGTGTGGGTGTGTGTCTGAGCCCGCTGAGCTGGGTGCCCGGCTTCCAGTCCCAACCTCAGCCCGCCAGCTCGTGCCACTTCATTACCTCAGCTTGACCACCGAAATGAGAGCAGCGAGAGCTGAGGCTGCCAAGGGCGCTTTTAATTTCTCTCTTGGCAGTTGGTTTTGGACACTTGAGATAATTTTTGTGAAGCTTAATTGAAGGTCTCCTAGAAGCTGTAGATCTGATTCTATCACAGTTGGTGTAGAGCCAAGGGAGAAAGCTGAGTCCAATCGCTGTGTGAGATTTTGAGATAGCTCCATCCTGCAGCATGTGTAGTCCCATTTGAAGGCAAAAGGGAAACCTCCACACTGGTGCCAAGTGGTTCTGTGGGAAATTTTTTTTGTGGAAAATAAAAGGAAAAGAGTAGATGGCTCTGCAGCATCCATATCACTGCCAAATCAGATGAAGTAGAGTTCTGTGAGTGTGTCCACTGTATCCCATGGGCTAAATCCAGCCATGAGAAGCCCACACAACTGATGTTGACTTCAGTCAAATTTTGGATGGCCTTTGCCGACAGGACTTGACTTCAGATTTTATTTCTGAGACGAGGAAAGATGAGCTTCAGAGATGCTGAGCTGCCTGCTCTGGGGTTCAGAGGGACTCTGTTGTTAAAACGTGACAGCTGAGCAGACAGCCTGTGTTTAACCACTTGTTCATCCTGCAGACCTTTCATTCTTACTCCATGGTGAGTCCAGACTTTGTCACTACTTTGCTCATTATTTTAATTTCTTTTCACCTCAG
Seq C2 exon
GGAGATGAAGGACCCTTAGGACCACCAGGAGTCCCTGGTTCAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006958:ENSGALT00000011272:29
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=FE(26.2=100),PF0139113=Collagen=PU(17.5=77.8)
A:
NA
C2:
PF0139113=Collagen=PD(15.4=66.7),PF0139113=Collagen=FE(17.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
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]