GgaINT0039316 @ galGal3
Intron Retention
Gene
ENSGALG00000005180 | COL11A1
Description
NA
Coordinates
chr8:11959456-11960884:+
Coord C1 exon
chr8:11959456-11959506
Coord A exon
chr8:11959507-11960830
Coord C2 exon
chr8:11960831-11960884
Length
1324 bp
Sequences
Splice sites
5' ss Seq
GCTGTAAGC
5' ss Score
4.47
3' ss Seq
AAGAAATTCTTGTCTTTCAGGGT
3' ss Score
7.92
Exon sequences
Seq C1 exon
AAACAGGGAGAAGATGGGGAAGTTGGACCAAGAGGTCTCCCAGGTGAAGCT
Seq A exon
GTAAGCAATACTTTCTTTCTTTGTTTCTGACCAGCACACTGTTTTACAAACAAACGTAATTCTTAGATTTCTTTCTATTGAATTGTTCTGGGTTCCAGATACAGAAATCTGTGTGCATATATGTATATGTAGAGAATGCTGATATTACCTGAAAAGTAAGCATGAGATCTGTATTGTTGAAGGTGAAAGGCCACTCACAAAATCTGAATTAAATCAGATGTATGTCCAGATAAGTATTCACAACTCCAGTAGTCACAGAGCCTATTTCTTATCCTTTTGAGCTAGTGTAAAATCAGTCACTGCAGACTTTGATACATGAGAACATATCCTATTGTTTTGAAAATGTTTTCCAAACATTTATTTATTCAAAAATAAGCCCTTCTTTTTTTCTTTTTTTCCCAATACTATGCTTCAGTGTATATTTTTATGCTTGTTTCTGATACAGAAGTTCCACTGCTGTCAGTTAGAATTCTGCAGGTGTTGTCACTGCAGAGCAGAGTTCTGCATTGCAGGCAAGAAATCAAGCCTCAGAAAGGGGATTTTTACCCTAAACGTGATATACTGCTGCATACTTGCTAAGTGACAAGAAAATACTACAGTCAAAGTATTAGTGACTTGTGTCTTTATCATACATGAGGAAACTGGAGATGTTGTCCTGCCTACTTTAGCAAGTGTGATATGAGTAATGGCACAAATTATTAAAATTATTTTTCATTTCTATACTGTAGTCAAAAGCTTATGCTATAGAGCAAATCTTGCTCAATGTGATCTAGAAGAATAGCCCTTGGTCTTCATGGATTTTTTGTTTAGGGGTAAGAAAAAACAAGCCTCATTGTGTTCATCAGAATGCCTTGCATTAATTATAATAAAATTATTAGTAGTTTTTAATCATTTATTTAATCTTTACTACAAATAAAAGCACTGTTTGTAGTAGTAGTAGAAATTATGATAGACCATTGTGTTTTCTAAAGATAGGAGTACAAATGTGTACTACTGTTCAGGTCAGATCTTCACACCAAGGCAGTGATGAAACCCCAGTGAAAGATACTGCATCAGTGTTCTGTAGCTTTCTCTGAAATGACAACACAACTGACTGTATCAAAGTTTGTCCTTCCACTGATGTTCTATTCAGACCTATGATAGGCTTCAGGAGAATGTATTATTGGTGATTTTCTTTCCTTCTTTTCCTCTTTCTTTTTTTCCTTCTCCCCCAGCCACCATGATGCCTTTCCCTTATCATTCTTGCTCCTTGTGACATTCCTCACCCAGATCTGCTCCTTGTTTAGAAATAGGCAGCTGTTAATAAGAAATTCTTGTCTTTCAG
Seq C2 exon
GGTCCACGGGGACTACTGGGCCCCAGAGGTACACCTGGTCCCCCTGGACAACCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005180:ENSGALT00000008321:20
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=PD(3.3=11.8),PF0139113=Collagen=PU(25.0=94.1)
A:
NA
C2:
PF0139113=Collagen=FE(26.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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]