GgaINT0046091 @ galGal3
Intron Retention
Gene
ENSGALG00000002552 | COL3A1
Description
NA
Coordinates
chr7:593806-597106:-
Coord C1 exon
chr7:597032-597106
Coord A exon
chr7:593860-597031
Coord C2 exon
chr7:593806-593859
Length
3172 bp
Sequences
Splice sites
5' ss Seq
ATTGTAAGA
5' ss Score
4.37
3' ss Seq
CAATATAGAGTGGCTTTCCGGGA
3' ss Score
-10.81
Exon sequences
Seq C1 exon
AGTTTCTCTCCACAGTATGACTCCTATGATGTGAAGGCTGGCTCAGTTGGCATGGGTTATCCTCCCCAGCCCATT
Seq A exon
GTAAGATGATAAAACCTTTTCTCTGTCCTTTAATTAAAAAAAAAAAAAAAAATTTTTTTTTACTTGTAGATTATGCCTTGGATGTCTGTGTATCCTGACTATAATTTAACAAATTAAGTTTTAATTTAATTGTTGCCTGCAAGTGGAATGTGTGCAGTTTACCTGGCATTATCATTTTAGAAAGTAGCTATAGATTATCTGTTGTGGTTTTTCTTTGCCTTTTTTCTCTCTTTTTTCCTTGTCTCGCCTTCTGCTTTTTAACTTCTCTGTGATTCATTTTCATATGCTAGCCAAGCATTTATTTCTTTTTCCTTTTCATCATCATTTATCTGCTTGGTATTCTCCTGATAGCTTTCCCCCACCTCCACTGTATTTTTACCTTTTCTACTGTGCCAAATCTTCCTTTATTAATTCAACAGCGTCCTGTCTTTACTCAGTATGACTTTCCATACTTGCTCACATTTCCAAAACTCACATCTACCTGATAGTGAGTAAATAAAGCCCTGCTATAATCTCCTTTTCATCCCAGGAGTCAAAGCTTTTCATGCTTTCATTTTACGATTATGAATTTTTTTTACCTACAGCTATTCAGACTGGGTACTGTACCTCCCTGCTAGGCCTGACCCAAGCTTTTCAAAGTTTCTTTTAGTGAGCTAAAGCTTGGAATGCTTTGTTTCTGACATACAGTAGATGTTAGAAGTTGAAACTCATGACTTTTCTTTTAGACACTAGGATTTTTAGATACTCACCACCACTGACATGGAGCATTCTTGCAGCAGTGATACCATACTGACATCTGAAAGTGTCTGTCTTGATTCAGGCAATCTGTTATGTGATGGATGTAGTGAATTGCTATTCTTTTGAAGTGAGCTTCTGCTTCATTTAAGTGTAATCGTGATTTCTAACCTTGTGCTGCATAGCCATGTTTGGGTGCTACATGTTGCAATATGTCCAGGCAGCCCCAAGGAAACGTGTTGTTTTTCAGAGTTCCATCAGATCATCCCATGAAATAAATTTGCTTAATTCTGGCAGCTGTTTGTCCTGGCCTGTAGTTCATTGTTTTCATGCCTTTAATTGCACCTATTTATTTCTAGCTCATTCATTTGTTAATGTGATCATTCATGCATTGATCTTATTAAGCCTTAAATTTTTGCATTTGTTCATTAATTTTTTTCATCTCCTTGCAGTTTTTCCTACAGCTTATCATATCATCTACATTTTGTAACTTGTGGTCTTCATATGGGATGTGCTGAACCAGGCTGATAACAGGGTTACCTTTCAGTTAACAGATGTAGTTACTCCTCTCTAATTATTAGACATTTTTCCTCAAGAAGCTTTTGATCTTAATTAAATTAAATCAAATTTATAAATGAAATTAAATAATGATTTAATTAGTCATGCTAGAATATTTCCAACCAGAACTGTGTGTGTATATATATATATATCTGTCACCTACTCTTTTATATTGCATCATGCAGTGTACATGAGGGTGACAGAGAGTGATAGTGAGGGTGATACAGCACTGGAATAGGCTGCCCAGAGAGGCTGTAGATTCTTCTTCTCTGGAGATAATGAAAATTCACCTATGTGACCTACTGTAGGAAACCTGCTTTAGCAGAGATTGGATTCAATGGTATCTAGAGGTCCCTTTCATCCCTCACAATTCTGTAATTCTGTGATCATGCAATACGTGACTGCAACTTAAGTAGTGGAGCAGTACTAGGCAGATGTGACTAAAGTCACTGAAACTAACATTTATCATTAACATTACATAGATTCTTCCTGTTAATTCTAATAAATATCCAAACTGAAATAATCTAGAAGCATAATAAAATTAAAAACATCAGCTGTAGTATTGACTTCTTTCAATGGGTGGTTACCATGCCTGGTTTTTCCTCAGTCACACATCTCCATCCCTGTCTTTCCAGTGTCTCTCTACTGCATGTGGACTGATTTTGTATTTTATACCTCCATTTCTCTATACTTGCTCGTATAACCTTCACGTATCGGTTTAGACCCTTTACCGTAGTACACGTGTCCTAACTAAAATCCAGTCATTTATTCACAGTCTGAAGACACTGATAGTGAGCAAATGCCATTCTTAACTATGAGTTTATCTCTCTACTGTGCACCCTGAATAAGAATAATACGTTTGTTTGTAGGCGGATGTCTGACCAATGGAATGCAGCTGATGAGTTGATGATTCCAATCCATGTTGAATCCAGCCTTAGTTCGTGCCAAAAGTTTTGCAACATTTAACAGAAAGGGACTGCCCATTGTATTCTTATATTGAAGGCAACCCGATCTACACTAACTGCTCTGCCACTTAGAAAATAGCAGCTCTAACAGTGATTCTCATCTTTAGACAAAAGACAATCAGTAAAAGAACATTAAGTCATGTATGTCCAATATAGTAATATACTGTATTGCATATACGGCTATAGAACTACACCATTAATCTTGTATTAGGAAAATAAATTTCCTGTAATGTCTGTATTATATGACCTATTCTGACACCAGGCCAGCAGCACGGTTTCTCATGTAATTCCTATAATTCTTTTTTTTGGCTGTATCAAATCCATGAGCAATTAAATTTAGCACAAGTGTTTTTTTTTTTAGAGCCACAAATAGCTGCAGTACACTACTGTGATAATTTTCCGATGTTTTCTGTTTGCAATATCAAATGCTCCTGTAGTTCTTACTGCTAAAGGTAGAAAAATTAACATTTTTCCCAAATTTGGAATTTCCTTGCTATTTTACTCATTTTACTCTATTTTTTACCCATTAAATAAGGAACAGTGCTACTGACTTGAGTTATTCTTTCTGTATACTGAAATCTCATCGTCTGAGTCCTTTGATTAGTCCAGGTAATATGTGTGTTTTGTGGCTTTGCACTGTTGTGTTCAGGAAAGAGCTCACTGTGAAAAATACATGCTTTGCTGACAAGCAACAAGAATATGGCCTTAATTCATTAAGTCCTAGGGTCATAAACAGAGTTCGCTTACTGCACCAAGTGCACGTCACACTGGATTTTTCTCAGTACTAATAATCATTCATATGTAAAAATTTATTTCACAGTTGTTGGTGACTATTGCAGCTGCACTAAGCTTTCTGACTATAGTACACTGATAAAATGAATGTTTTTTAATCTGCAATATAGAGTGGCTTTCCG
Seq C2 exon
GGACCCCCTGGCCCCAGTGGCCCACCTGGTCCACCTGGTCATGCAGGTCCCCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002552:ENSGALT00000004033:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.980 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PU(11.6=32.0)
A:
NA
C2:
PF0139113=Collagen=FE(33.9=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]