GgaINT0097660 @ galGal3
Intron Retention
Gene
ENSGALG00000009641 | COL1A2
Description
NA
Coordinates
chr2:23540986-23542690:+
Coord C1 exon
chr2:23540986-23541039
Coord A exon
chr2:23541040-23542645
Coord C2 exon
chr2:23542646-23542690
Length
1606 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
GTGAATTTTTTCTTTCACAGGGA
3' ss Score
9.97
Exon sequences
Seq C1 exon
GGACACAATGGTCTGGATGGTCAGAAGGGACAACCTGGTACTCCTGGCACCAAG
Seq A exon
GTAAGGATGAAATCTGAAAATGCAGGATTCATTTGTAGCTCTTTCTAGGGAAATACATATGAAGTCTTCTCCAATTGATCTTCCATGTTGTCACTGAATATTGCCCAGCTGCAATATAATCTGGAAGGCAGCAGATCCGTGTAGGACAAATAGATGCAACTCAAGATGAGAAATCATGTTAGGGCCTTTTTCTGTAGTCCTCAGTCAAGTAATAACTGTTAATGAGTAAGAACAGCAGAACTGGCTTCCTAATAATTGCCTTCCTCTGCCTTTCTATGGAATGTAGTTGGAGTTTAGGTATTTTCTCTAAAGCACATTAAAATGAGAATGTAATTTGTCTAGAAAGCTCTGCTGTTGGGGACATACTTTAGTGAAAGGCTTTCTGCTAAAACTTTGGATAAAGAGTTAAGGCTACTCAATCTTCAGACTTCTTCTTTTTCGTCTTCCTCAGCTTAGTGCATATTTTAACACTGCTTAAGAAAGCTTTTCTTAAACGTGGTCTAGAAACATTTAGCAAGCTTTTCCTCTCAATTTCTTCATCACTCCCACTTCAGTGCCTACTGACAATGGTCTTAAAAAACACTACTGCTTTTTTGGGGTGTAGGAAATTTTAATGCTGATGATTCATTCACAGTAGGTCTGCATTCAAAAACTTTTAATGTAACAACGTAAGGGTCAAATTCTAATCCTCATTATTGCTTGTTTACAAGAGCTTAGCACTACTTGCTTGTAGTTACTAACTGTACCACAGTATTTTCCAATGTCACTGCAACTTGTTTAGCTCCAGAAAAAGTTTGGTAATGAAATAGCTACCAAACACTCTGTCCAATTTCTGGTGGCTAAAAGCAGATGAAGTAAATAATCAAATGAAAGAATGCTAATTTGACTGAAAACACAAGTGTGATGTGATTTAATTGTGATTAAGGCAAAAACTTCTACTGTTTGCAGCACTTAAGACTTGGTGCATTCAAATATGCTTAGGATACTAGTGCTCTGGAACAAACTTTGTCACTATAGGCCAGTCTAGACAAACTGTGAGATTACTGAGAGCTCCTAATATTAAGGGAGATAAGTCACATTTTAGTGGTTGTCACTTATATCAATATTATTGGTCATAAGAATTTGGGTCAGATATTTCTGTCTTATTTTTAGTCGTTTGACAGCACAGATGAGGAATTTTGTCACCTTAACTTAAGGCAAAAGAAAGTATTTTCTTTCACTAGCTAAAAAAAAAAAGTTGCAGTTTGATCAGAACTGGTAGTTGACTGTTCTCTAGCCCTATCTCTTAGGTGTGTGCTACAGTGCAAATATAACAGAATGAAGAAAGGGAGTAAAGACAGTTGAGACTGGCAAGTGAACCAATTTGCTCCTAGTCTTCCTCTTTTAGGAGGATTTCAGCTGGCTTTGCTCCAGTATATAATGGGATAGTCACAGCCTCTGCACTGTCAGTGACCCATGTGCTGTTATTCTACACAGTGGTGTGAGTGCTACAGCAGACAAGAACAGTAGGATACAGCAACTGAATACCTCCTCGCTAGCTGGCTTTGTGCTATCAGTCCAAGGAATCCTTTGAGTAACTTAAGCATGTGAATTTTTTCTTTCACAG
Seq C2 exon
GGAGAACCTGGTGCCCCTGGTGAAAATGGTACCCCAGGACAACCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009641:ENSGALT00000015706:11
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(27.9=100),PF0139113=Collagen=PU(10.3=44.4)
A:
NA
C2:
PF0139113=Collagen=PD(14.8=60.0),PF0139113=Collagen=FE(17.9=100)
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]