GgaINT0039331 @ galGal3
Intron Retention
Gene
ENSGALG00000005180 | COL11A1
Description
NA
Coordinates
chr8:11978076-11980858:+
Coord C1 exon
chr8:11978076-11978120
Coord A exon
chr8:11978121-11980804
Coord C2 exon
chr8:11980805-11980858
Length
2684 bp
Sequences
Splice sites
5' ss Seq
AGGGTGCGT
5' ss Score
7.22
3' ss Seq
TTTGCTTGCTTATATACTAGGGA
3' ss Score
6.26
Exon sequences
Seq C1 exon
GGTACTTCAGGCAATGATGGTCCGCCTGGCCCACCAGGTGAAAGG
Seq A exon
GTGCGTGAAAGATATCTATATGTGTGGTTCCTTTCCTGATATATAGAAGTGAGGTTTGGTGGTGGGAGGATCAATTTATTTTTAGTTCTCCCTCATCTATTTGCCTTTCTTTGATCAGACTAACCAGAAAAAACAAAACTTCAATTCTAACGATGTTGCTTTTCATAAATTTAGGAGTGGGTAAGCTCAAGTTAGCTGAAAGCTTCTTCAAACACAGTTTTTTATAAATAAGACAAAGAGAATTCATATACACTTTGCGATATATCTATGCAAATTACAGTTGCACTTTACCAGTCTCTGGTCTTAAGAATGCCCTATTTACTGTAGCATGCCACTTGTTTATGAGATTTACAAATCACACAAGCCATCCCTAGGAGATTCTTTGTTGAAACAGCTGATGTTTTTTTAGTTCTGATCAACTAAGAATTTCCTTCAAACTGTATAAACTTCAAACTGCATCCTTGAGAAATCCTACCGTGCATGCTAAAATAAAATTTTCTACTTACTACTCTTATCAATAGAAAAAAATATATATGCATTACACAACAGCAAATAGAAAAACAATATTAAATTTGATTTGTACCTGTGTGTATATTAAGCAAATGACAAAGTATCAAGTGGAACATTGGTGGCAAGAATAAGTGGTAAGTTTAAGTGAAACAAAAATGATGTGTCAAGGAAGAGACAGACGGGTAGGAAGCTGAGATTCAAAGGAGGAATGAGTTAAGTAGTATGCTACATAAATCAGAATTATGCATAGTCCAAAAAAGGAAGTCTGTGTTGCCTTACCCTGTGGAGGAACATCTGAGGCAGGCTACCAGGAGCTGAAGAGCAGAGCCTAAAGATTCAGGGGTTTACTGATAATTCCAGGAGGTTATAAGGACGAGGAATGGGAGGGGGACTGAACATAGTGAACAGGTCATCTTAGATGAAGGCATCCCTGGAGATTAACTGATTAGACCAAAAAGATGAAGTTATCACCGAGACCCACATATGATATCACTTATGTAATTTAATGTGTGGTATCTGTTTGCTTCCCAATAGGGGTGAATATCAGCTAAGAACTAAAACTGTCATTTCTACTCAAGTGAGGCTATTCCAGGTACAAGACATGTGAAGATTAAACAATCTGTTCTGTCTGGCTACTGCTAAAATGAAATTCAATGACAAAAATAAAAAGTAACTTTAATAACATGTTGTTAGTATTCTAGTGCTGTTTCTCACATAACCCATCATTATACCAGCTTGAAATCTGCAAGACATTTTGTCAATAAGAACAAACTGGAAATCTTTCATTAAAACGGCTCAAGATGCGAGAGTCAAAATAGAGTGGTAATTTATGAGAAAGACAGTGTAGTAACATCACAAAGATTTCCTCCTTTGCTTTACACTTCTTAGTTAACTTGGATTTAGTATTGCTGTATAAGATTCACTTAAGGACAGATCTCCAGGTTGGGCAGAAGCGACGTCTTCTTCAGCTACATTTGTGCACTGCTTCATCTACTTCAGGAGGCTGTCATGCTCTGGCAGTCATGCTCTGTACTCTAATGAACTCAGAAGTAGCTAGTACTTTATCAAAGGAGCTAAAAGGTACCATAATTTGAGAGATGTGGCCTCCTGATTATGATCCTTTGCTTCAAACTTCAAAGCAACATTTCTAACATATTTTGACATCTGACATTTTAGAAAACCACACATTTTATACCAAGAACAGGGTAAGGGTTGCACTGTATGATTAGTATACATAGCTTGGCTCTGGAACAGCATAGAATAAATAAGGTTTTTCAGGTGGCTAATCTTTGACTTAGCATATTAAAAACTAAACAGTGAAAAGTCTTTTAATAAGCTGACATAGTCCCTTTGAACATATCAGCAATAAATTTTAAGAGTTGGCCTCTGTTTTGCTTGGTAATAATTTTAGAAACAGTAAGCTGGCATTTTGTATAATTATGTAAGTACACAGATCTATGTCCATAGATATATGTGGACATACATGTATGTGCATATGTGTAAAACACAGTGTGCTAACTCATATCATCATCTTTCACTAGATTTGTGAAACAATGCTCCATGAAAATTTTCTCTCCCTACATATATACGTATATACAAAACTACAGAAACAAAATTTTCATGCATTGCACTTTTTTTTTTTTTTTTAATCTATCTCAACTACTTTTCATGAAAGCATGAATATTTTTCTTTCTCCCTGGTAACTTGGAAAGCTTATTCTGTTTGGAAACTAGCACTGCTATAAAAGTAGCTTGAAATATTACCAGAGTAATATTTCAGAAATATATTTGGCAGAAACTGCCAAAGATGAAAATTCTATTCCATTAATACAGACCACCAAACTGAATGAATTCCCATACTTTATGCAACATAGAAAACAATGTTCCTTACTTTATTAAGGAGTTAATAAGTTAACTCCTACTTTATTATCCACTGTTTCAGGGATTAGATAGAAATACTTCATAATTGTTATTTTTTCTAATTGCATTCCTACAGAAGTAGTCTTGCTTTCAATCTGTTAGTGTGAGCTGTTGTACCAGTATTTATGACAACATAGATGAGGCTTGGCCATATATTATCTAGAGAGTTTATATATTTTATAATTGAAGCAAACTTCAGTCCACTGTCGTGGCAGCTGGAATAAAACTTTGCCTGTTTGCTTGCTTATATACTAG
Seq C2 exon
GGACCACAAGGGCCTCAAGGACCTGTTGGATTTCCTGGACCAAAGGGACCCCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005180:ENSGALT00000008321:35
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(13.0=66.7)
A:
NA
C2:
PF0139113=Collagen=PU(28.3=94.4)
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]