GgaINT0125265 @ galGal3
Intron Retention
Gene
ENSGALG00000002546 | Q90689_CHICK
Description
NA
Coordinates
chr17:8177596-8180784:+
Coord C1 exon
chr17:8177596-8177652
Coord A exon
chr17:8177653-8180742
Coord C2 exon
chr17:8180743-8180784
Length
3090 bp
Sequences
Splice sites
5' ss Seq
CCGGTAAGG
5' ss Score
10.19
3' ss Seq
TATTCCTTCCTCTTGTTTAGGGT
3' ss Score
10.27
Exon sequences
Seq C1 exon
ATTGGAGGCCCACGGGGTGAGAAGGGGCAGAAGGGCGAGCCTGCCATTATTGAGCCG
Seq A exon
GTAAGGACAACCTCTCTGCATTCTGTATGGTGTGGTGCTCTTGGTAGTACAGCCGAGAAGAAAATTTCCCATTACTTGGGCCATTTTAGTGTAAAATACTGCAATTATTTCTTTTTAAGACACTTCACAAAGCAGCTTAAATTAGGAAGGAAGTGCTCAATTTCCCATGACATCTCATTTGCTGTAGCGTAACCCCAGACCTTCCGCAATAGAAGTGCCTGGCAGAGGCCATTCCCCACCTCTGCAGGGATTTTGGAGGCCCCACAACGCTACTCCTGCAGCCTGGGGCCAGACCACACTCTGACCCAAACCCTCAGCTTGGGGATGGCTTTAATGGTGCAGCCAATAGGTTTGGCTCTGTGCAAATAAAGGGTTCTCGGCGCACAGCTTGCTCCATTGCCTGCTCCCAGGTCCCAGCAGCTCCCAGAGAAGCCCTGTGTAGTCCCAGGGGGAACATCACTGCTTTCCTTCTTTACAGTTCCACTCTGACCCATTCCTGGGGTTGTTTTGCTTTCTAAGGAATGGTTATAAACTGTGCAGTCTGCACAAAAGGTCAGCGCCCAGCGGAGCATCCCATAGGTGCAGATGGGTCTCCCCAGTGCTGCTCATGTGCCCTCAGCAGGACAAGGGGCTGTTGGCACATGTGTCTGTGCGCCCATGTCTGTGTCCCTCTTGAGGTGCTGGGGTGCTCCTGGGCTGGGAGTAGGGCTTGGCATCACTGCGCCCACCCCACCGGCCGCATCTGCAAAGGGCAAAGCTGCACACCAGCAGCTCAATTAACCCAGTTTCTCTTGGCAGAGAGCCCAAGCGATGCCCAGCAAAGCAGTAGTACTTCCCATTGCCCACAGTCCATTCTTTTTTCTTCCAATTCTTCCTCCATTTCCTTCTCAAGGAGACTTTGTCGATGCTGGCAGAGCAAGGGAGGAGCTGGGGGCAGCAGTGGGGCTTCACGGGCCTCCACCACTGCCTTATGAAAGCATTTCCGAGCCTTCCTTCCCTCTTTCCTTCCTGGGTCCTGCTATCCCCCTGCAAACAAAGGCAAGGAGCGAATGCTTTGCTGAACCATGCAGCAACACAGAGAAGGCAGCTTCAGCAGCCCACCCTGGGCCGGAACCAATCTGCAATGTTACAGAGCGAACAAAATAATGGTTAAGTTTAATCATCCAGAAAGAATTTGGCTGCCTTCGCTATTTCAAAACACTGGAGCACGTATAGCTTTTGCCAGAGAGTAAACAAGACCAAATGCTGCCGTGTTCCCCTCCGTTCGGTTCCTCTTTAGCAGAGAGAAATTCGCATTTGCTGCGCTCTTTATCTGGTTTTTGATCGGAGCTGCAGCAGAGGTGGAGGGGGGGGGGGAGAAAAACCGAAGGCGGGTTCTGCTGAATTCTCTTATCTTGGCCTTCAGGCTGCCTGTCCTTCAATCCTTGCTCTGTGCTGACGCTCGCTGGAAGCAGCAGGGCAGCACAGGCTGCTCGGGGACGTGGCGGGGATGCTGGGACCCCTGTGTCCCCATGGCCCAGCTGTGGGGGTGACAGGCTGCCTTTCCCTGCTCTGGGGCAGACTCAGGTGCTCACAGCTGCCTTCAGAGAGGGTTTGCTCAGCCTTTGCACAGCTCCCCCATACACTGCAGCCAGTTTTTGTTCTTTCTCTGCAGCGTTAGCCTCACCTTTGGGTAGCAACTGGGTTTTGAGGGGACTGACATCCCTTTTTTTTTTCCCCTGGATGGCCCCAAACATGTGCTTTGCTTACTGCCCCCAAGGCAACCCCCTTTGGTCCTTTGGTGGCATGCCCCCAGCTGGTCCCACAGCCTCCCGTATCCCCACCCCTGTGCTGATGAGAGGTCGTGTAAACAGCAGCGATCTCTTGCCGGGGAGAATCTCCAGATGTCCCTAAAGCTGGAGCTCAACATAAACCAACTGATAAATATGGGAAGATGCCAAGGATGTTTGCATCATGAATGGGCTAATTAGCCCAGGCTGTGCATAGGAGCATCCTGCAGCCGGCTGTGGGAAGCAGAGCTCAGCCCTGTGCGTGCTCAGCCTGCAGTAACCCTGGGGGCACCCCTAGAAAGTTCTGGGAGGGACAGATGTGGGCTTGGGCTCTCTGCATCAGACTGGAGACACTGTTAGCACAGAGAAGGGGAAGGGTTGGTGTTGGGTTCTGTATCGGAGGCTGCCACACACCAATGTGCCATCGTTTGTCTCAGTGGGGATGGACTCTGTGGTCCCTATATGGGAGGATGTTTGCTGAGAGCTCTGGGATTGTCCATGGAAAAGGATGTAGGGCCTTGTGGATGTCATTCCTGGGGGTGCAGGGTCACCTGCCCCATCCTGCTAGCCCTCGACAGCAAGGAGTTCGTATTTAGTGTGGGTTGAAGGAGTGTTGTGTAGGGATTACTTCTAATTCCCAGCCAGAAGAGAGCGATGCCTCCATGGCTGGCAGTGAAATTACTTCCAGAAAGCATTTGCCTGGCTGAATGGGAGGTTTTTTTCCTGCCTCTTACATAGCCATGAGGGGGGAGAACAACCGAGTAAATAAATGAACAGAAACAGCTCAATTCCACTGAGTATGTGCTAGACCTGATTTAAAGTTAGGACAAAATATCTGGATGAAAAGGAATGGAATAACATAATTCTGCTGTTTTGCCTGCGCAGTGATTTCCTGGGTACACAGAGTAAATCATGGTGTGCAGCTGCTAGGAAAGTAATTTCAAAAAAACCCCAAACCTTTGCAGTTTGCTTATTAACTTTCTATTGTTCTCTCTCCAAGCTGCTGGGTCTTAGGGGCTGCTGCTTCCCAAAAAGGAGCTCTTCTCCCCATCACCATAACCGAGGTTTGCCCTTTAGTGAGGGGAGGAGGGCAGTGGGCAGGAAGGCAGCCCAGTGCTGCGGTGAAGGGCTGTTTCTCCATGCCCTGCATGATCCAAATAAATGCTATTTGGTTTTGGTGATGTCACCGAGGGAGTATGGAAGCGAGCAGAGAGGTCTGAGCTATTTAAGGATGGAGAAAGCATTGGGTTTCCAGCCCTGAAGTTGGGGTGGCTTTGAGGATGTGCCTTGCTAATCCCTGTTATTCCTTCCTCTTGTTTAG
Seq C2 exon
GGTATGCTTGTGGAAGGTCCCCCTGGTCCCGAAGGCCCCGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002546:ENSGALT00000039035:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.979 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0139113=Collagen=PU(20.4=78.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
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]