GgaINT0097680 @ galGal3
Intron Retention
Gene
ENSGALG00000009641 | COL1A2
Description
NA
Coordinates
chr2:23555685-23557251:+
Coord C1 exon
chr2:23555685-23555792
Coord A exon
chr2:23555793-23557197
Coord C2 exon
chr2:23557198-23557251
Length
1405 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
CTTCTCTGTATGTATTTTAGGGT
3' ss Score
11.62
Exon sequences
Seq C1 exon
GGTGAGCCTGGTAATGTCGGTCCTGCTGGTGCTCCTGGTCCCGCTGGGCCTGGTGGAATCCCAGGAGAGAGAGGTGTTGCAGGTGTTCCAGGAGGCAAGGGTGAGAAG
Seq A exon
GTAAGGCTGATGCTCTTTGTTATATATGCACGGGTCTGGGAGATGCTTGAATTTCACTAACTGAAAAAAATGCAGGCTACGCAAATACAACTTCTATTTGCTGTGAAATTGTATTTTGTGGTGTCTTGTTAGTTCTCAGTAAGTAAAGGTTTTGTTGGTCCAACAGATTGATAGTAGTTTGAGGTCCTAAGGCTGCATTTTGATCTTTGCCCAGCATTTAGAATTGATTTAAGTGGCAGGTAGGGCTTCACAGGGTTGAGTAACAATGAGCTTACGTTTATGAAAGCAATGTTAAATCTGCATACAGGCTTTACAGCAGGAATGGGCTTATGGATCATAAAGAAGTGAGTGTCTGCTCAAATCCATAACAGCTCTACTCTGATCTCTGACACAGTACATACGATGTATAAATAAATGGTTTAGTGAGAAGTATTGGTGATAGGTGGATGGTTGGACTGGTTGATCTTGCAGGTCCTTCCAACCTTGGTGATTCTATGATTCTACGAAATGACAAAATTTTTGGTTGCATCAGATGCATATAAAAGCAGAACATTTTAGCCAGTATAAGCACTTGTACTGAACCAGACTTCATGGTTTTATGTAAGTCCTGTTGCAAACTCTGCTTTATTCATATAATTATCCATAAAATGGATTCTTACCTTGTTAGGTACACCTTGTTCCAAGTTCTCTTCAGTTCATTATTTAAACTCTAAACTGAGATTTCTATACCTTACATTGTTTAGACTAAAAAATCTATGACTGCATTTATGCTACATGACTATAAAGAAATTAAGATGAAAATTGCTTGCAACTTTTTATAAAAACTGGGTACTGACATGCAGATTAATGCAGAAGAGTAGGACTTCTTTAAAAAGAAGAGAGAACAGAATGCTAGTCTGACTTTTTGACATTAGCAATGGCCTAGATACTATTTTTGTTACATAAAATATATGGCCTTTTACATGACCACTCACGACCTCATTTTTTTATCAGTTCTTTTCTTGCTTCGCATAGAAGATATAACATGAATCCCCAGGAAAATTTTTACATTTGGTTCTTTTGTGACCAAAAGAAATGGGGTTTTGAAGTAGTATTTACATTCACCATTTGGAATAGACGTTTTAATTTTGAATTTTTAATTCTTGGTACCTGGAGGCAACTAAATAGGTATATATATAATAAAAGAGAGAGGATTATAGTTCTGTCAAATCTTACCATTCCTCGTTGTCTACACATTTTATCTTTGCAAGTAAGTACATACTCGAAGTCGTAAGTCAAAGTCCATTCCCAAACCAAAACCAGCATAAGTATCTCTGTAGTACATGTGCACTCAGTGAACAGCTCAGGGTTTCTTTCTTTGTACATTACCAAGATAATGCTTGCTTCTTCTCTGTATGTATTTTAG
Seq C2 exon
GGTGCCCCAGGTCTGAGAGGTGACACTGGTGCAACAGGAAGAGATGGTGCCCGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009641:ENSGALT00000015706:31
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(42.6=80.6)
A:
NA
C2:
PF0139113=Collagen=FE(25.0=100),PF0139113=Collagen=PU(12.6=61.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
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]