GgaINT0021995 @ galGal3
Intron Retention
Gene
ENSGALG00000008294 | Q9DEX2_CHICK
Description
NA
Coordinates
chr12:19162526-19164196:+
Coord C1 exon
chr12:19162526-19162665
Coord A exon
chr12:19162666-19164030
Coord C2 exon
chr12:19164031-19164196
Length
1365 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAT
5' ss Score
8.39
3' ss Seq
TTAAAATACGTATCTTGCAGGAA
3' ss Score
7.85
Exon sequences
Seq C1 exon
AACTGATTGCTGAAGAAATGGAGGAAGAGAATAAAGAGCATACGTGTGAGACGTTACTGATGTGCATTGTTACTGTACTGAGTCATGGGCTCAGGAGTGGGGGTGGAGTAGGTGATGTGCTCAGGAAACCATCCAAAGAG
Seq A exon
GTAAATTATCACTGAATGGGGGTGGAAGAGTGATAACCATGTAGGGCTGGGGATCTGGTACTGCTGGGGAAAATGCATTTACACTCTCGAAACAGATGTAGGAGACTTTGTGAACTAGAAGGAACCATACTTTCTCTCTGTGTAATACAGTTAGATCTCAGTTGCATTAAATTAAGCTGCAGCCAATTCAAATAAGCTTTTAACTGTGTTTTTTGTCTTAGTAAATGAGACCATTTTCAGCATGAGGACTATCTAGAGTGAGGCCCAAATGAACAGCTGTAGTCAGCAGTCTGTGCTTTGGGGAGTGCAGGAATTGAAGAAGAGAGGTACAAGCTAGAGAAAGAGTAACAAGAAGTAGCAGAACAAAGCTGCAGTGCTAGTTGCTACCTTGCTTTTGGCATAAGTTTCTGTGGGGAGCATTGCTGGAAAGGTACGATATGTAAAACAGGGAATGGGATGAGAGGAGGGAACTGAGATGAGACTTTGGGAAAGGAAGGATCTTCTTTGGAGCCATCCTTGCAGAGCAAAGACCTTCACACCCCAAGCAGCCCACATGGCTGTTTCAGTAGCAGACGGTACCTACTGGAGTCTCACGCTCTCTTCCCTTTGGTCATTCCACAAAATCACGTTGGAGACCAGAGGGCCAATCTTGGTTGGAGTGAATGCTTTGCACCTTGAAGCCAGGGAAAAAAGGGACGTCTTCAGCCACATTTTTACCCCATCTGCTTTGCTCACATGAGCTAACAGAAGTACATAGTCTGCAATTTCAGAGTGCTCTTTAATATTTAGCCTTATTTTCAGCTAAAATGATTTGAAAGCTACATAATTCATAACCAAAGTTTGGTGCTCTCTGGCTAGGATGGCTCTGAAAATGGGGGTTAGGTAATGACTGTGATGTGAATGATGGTAAGTCCAACTTTAGTGCCCTGTTTCATTCAAAACTACGTACTTGGTAACATAAACGAATTCCATTCAATTTCAGTAAAAGTTTATAATTAGCACTGGTACTCTATTGGTGTATAACCAGATTAAGTGCAGATACAATTAGAATCAGCCTGCGGGGTGAAGAGGGCAAACTTCAGTGTGTGAGAGAATAGCATGGGTTTGGACAGCACAAGCAGAAAGAGCAGCTTGGTAGTGATTGCATACTCAGCTGACTAATTTGGCTTTTCTCTGTAGTCTTGCACTTTAGTTTCACTCAGTGCTTTGAGTTCTAAGATATCATTAGAGAGCATCAGAAATGGAGACACTGAAGGGAGGGGATGTGGGGCAGCATACCCTTGCTGCTGAACTGCAAGAAATGTATTGTAAGGGTTAGCTGTACACGTATTTGGGTTGTTAATAATTAAAATACGTATCTTGCAG
Seq C2 exon
GAACCTCTCTTTGCTGCTAGAGTGATATATGATCTGTTATTCTTCTTCATGGTCATCATTATTGTCCTTAACCTGATTTTTGGTGTGATCATTGATACTTTTGCTGATTTAAGGAGTGAAAAACAGAAGAAAGAAGAGATTTTAAAAACAACTTGCTTTATTTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008294:ENSGALT00000013505:56
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.021 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=FE(17.8=100)
A:
NA
C2:
PF0052026=Ion_trans=PD(11.2=51.8)
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:
AACTGATTGCTGAAGAAATGGAGGA
R:
CTCTTCTTTCTTCTGTTTTTCACTCC
Band lengths:
278-1643
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]