GgaINT0039327 @ galGal4
Intron Retention
Gene
ENSGALG00000005180 | COL11A1
Description
collagen, type XI, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2186]
Coordinates
chr8:10236282-10239007:+
Coord C1 exon
chr8:10236282-10236335
Coord A exon
chr8:10236336-10238953
Coord C2 exon
chr8:10238954-10239007
Length
2618 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
TTACATTGATTTTTATGTAGGGC
3' ss Score
5.98
Exon sequences
Seq C1 exon
GGTAAGCTTGGTGTACCTGGATTGCCAGGATATCCAGGAAGACAAGGTCCAAAG
Seq A exon
GTGAGCTGTATATAAACTGTAAATCTCACACTGTTTTTCACATTTACTTTCTTGATAATCATGATCTGAAGTAAAGTCTTAGAAAACCTTGGTCTCTAAAGCTGGCTCTTCAAGAAACATTAAATTTCCTATTGAATATACTGCCTTCAAACTTTTGTCATTCTCTCAGTTATGTTTTGTGTTAGCTTCAGACTGGCATTCATTAAATTATATTGAAAAAGAAGGAATGACTTATATATTTGAAAAAGAATAAGCACTGTAGTCAGAATAAAATGGATGCTGAAAGTGATGGTAATTTTCAGTGTGATGCAAAGATTCAATTTGTGTCATTGCTGCCTATTCTTATTAAGATAAGAAGACATAAAATAAAAACATTATTCTACAGACATTTCCCAGTGTAGAGAAGGCAATGAGGGAGACGTTGCATCTCCAGACTGTCCTGAAGATGAGTCATCTGGGACAATACCACAAGTAGAAGAATCCCTTACCCTTTTACATGACTGAACATCAACATGCAGTAAAATCCTCAACTTTTTTGTAATTTGGTATCTCCCAACTTGAAATTATGAAATTTTGGCAGATCAACAACTTCCTGGTTGGCTAAGCAAAGCTTAGCTTGTTTTTTTTTTTTCTGACGCTGGCCTACATTTTGTCCTTTTCTGCCAAATGGATGAACCAGCTGAAGAATACTTAATCACTGAACACTCTGTTAACATAAAATATAAGAGCCATCTATGGAAGGTATTCATGGAGACAATTCACCTTGACAAACATGTTTTTTTTCCCTCCTACTTCTTAATTCAAATGTCTAAGATTTCAGTCTCTCTTTTTGTTCTCCTTTAGAACTGTCTTTTGAAAAGTCTAAGATCAAAGACGATTTGCATTATTCAGTTCTAAGAACAAAAGTTATGTAACACTTCAAATAAAAACTGACTGACTCTTTTTTGAGCAGAATTTCTCAAGAATTGCATTACATTAAATTTTCATTGCATTAAAATGGAATATAATTCTTAAGCTACATTCACTGTTTGCTCTTCTAATTTATCACTTAAACTCCAAAACAAAAGACAGCTAAAATGCATCAACTCACTGAAGAATTGTTTTGTAACTTAGTCACAGTCCAGTTAAAGTCAATGTAAAGGAGAGAGAGAGAAAAAAAAATGTAACTGTAGAGGAATATATTCGCTGTCTAAAAAATCTTGTTCCAGTATTGTTGAGAAGGCTTACATTACTCTTTTTGTTGTAATTTACTTGTTTTTCATTGGTCATAGAGTACTGCCATAAATGGATAATTTTCACGATTTTTTTTTTACTTCCGCCATTCCTTTTTGATTAGCTCAATTGCAAAAAGTACTTTATGTATAAAATATTTATAGCCAAGTCATATCTATTAGTATCCAATCATCAAAGTTGTTTTTTTTCCTCCTAGCCTTTTAATTACGAAGAATATACTTGAGCTTCACAGAACAGAATTTTTACAATTTCATTCACTTTTAAAATGGTGAAGAGCTGAGAGAAAGAGAGGGAGATAGATGAAACCTGTACCAATGAGTATCAGTCAGATTTTCATTAGAGTCAACGTCATTGATGTATTGTCCCCAAGTTCATTAATGCATAATTGTGCAACATAAGATTAATTAAAAGAAGAAGAAGAAAAAAAAAAGATTATTCACTGAAATTTCAAAGAGCAAAAGGAAATTCTATTTAAAGTTTTTGCTATATGCATTTTATTTGCCACTAAAATACTAACAAGCTGTACAGATATCACAGGAATATCACACCAGGGAGTTTGACCAGTAGTTTTAGTGACTGACCAAACTAAACACTGCTTTGAATTTTCATCTTCAGTAGAAGTATATTTTATCAAGTCTGTCACATGTTTTATCCTAACTGCCTTATAAAAATTAACACCTTGACAGCTAGCAAGTCTCCTCTTCCCTTGAACCTGTAAAAATCAAGAAGAAAATAGCCCTGTTAGATCTGGTAGGCAGTAAGCAGGAAGAAATCAGAGAAAAAGGAGAAGCAGGAATGGCTCCTGGAAGCAGTTTCCATGCATAGAACCCAGTCAGATAATCTCCACATAAATTCTGCTTACTAGACAAGCCTAATAACCACATGAACAAATTGCATCAATTAAATGAAACTTTCCACTGGTCAGTTTACAGTGAGTAAACCACCGGAGGTCATTTTCAGCTTAGTAGGATAACCACTGCTGAAAAGTGGCAACACTTATAATTACTTTAATGCAGTTATTTTATAAAATAGTTATTTTACTGCAAGGGACAAGGCTTTGTTTCACTTTGTTATGATACAATTGCAGTTATTTCTAGTGGGCTGTTAATGATTCTGGTGTAGATTTAGTGAATAATGTCTAAGATGAAAAATAATGTTCCTTCCATACATGGTTTTTTTTTTATTTTTTATTTTAATTATTCTGGACTTAAGATGGATGGTAAGTTAATTTACAGCTATTTGTTAGAGCTGTCACACTTGCAAGTTTAACATGATGTAAAATGTGCATCAGTTTAGAGGTGTGCTTTATATATAAATTAAATGCTGGCTATAGTACAGTTTTTTTCAATTGATGATTTCTGATATTTACATTGATTTTTATGTAG
Seq C2 exon
GGCTCAACTGGTTTCCCAGGATTTCCAGGTGCCAATGGAGAGAAAGGTGCAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005180:ENSGALT00000008321:31
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=FE(17.7=100),PF0139113=Collagen=PU(20.6=77.8)
A:
NA
C2:
PF0139113=Collagen=FE(17.7=100),PF0139113=Collagen=FE(25.0=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]