GgaINT0021938 @ galGal3
Intron Retention
Description
NA
Coordinates
chr12:11046652-11048040:+
Coord C1 exon
chr12:11046652-11046720
Coord A exon
chr12:11046721-11047869
Coord C2 exon
chr12:11047870-11048040
Length
1149 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGT
5' ss Score
11.01
3' ss Seq
CTTGCTATGTTTCTTGGCAGTGA
3' ss Score
7.28
Exon sequences
Seq C1 exon
AAAAGTGTGTGTGCAAAGAGAAGGTGCTTGGAAGCGTCAATGACTTCTGTCAAATGAAATACGCTTATG
Seq A exon
GTAAGTGCCCTCAAGGTGTGATACTTTCACAGCATTCTTCATGCATGTTATTTGCTGTTAGCTGATAGGAGTGAAAAATTACAGAACTGGCAAATTAGAGGTAGGATTTCTTCTGTGCTTTTTGTATAGTGACACGTCCAACTTCAGACCAGAGCTGATCGGTGAGTAGCTTGTTTCATGCCAGGCTCCTTGGTGTCTCCTTTCCACCTTCACTTTTTACAGCAGGAGTGCAAAACCTCTAAATCTGTGGAATGACTGACCTCTAGGTCAAGAATAAATGGTAAAAGCCCTGCATGCAAACTGCCATTGCTTTTGCAGGCATTATTATGCAGGCTCAAATGCTTGCTTACCAAGAATGTACTTAATCCTGTGATTTATCAACACCTGGTTCATGCCATCACATGAAGCAAAAAAGGAAAGCTTTGGCTTCCAGAGGTTTGATATGCTTCTGTCATGACACAACAAAGCCGGCTCATGGGACCAAGCTGGATGAATCTACCCTGCCAAAAAGTTACGGGGTCCTATTAAATTAAAGGAAATCTATCATGGCAACCAGATGTTAGGCCACAGAACACAAATACTTTTTCTGGTTTGTTATGCAATCATGGAATTTCAGCCATGTGATATGTCTGACAGGAAACTTCCTGACTTCTTCCTGTGGAGCAGACCATCCCTTCCCACTGGACACAAATTTAGAAAGCCCAGTGTTAAAGCTATACCAATTCAAGACAAGTTTTCAAGCTGTCAAGTATAAGGCACAGAATCAGCGCGCTTCAAATGAGACCATCAGCAGCTGATCTGTTTTCACACCCTTCCTCTGTATATGTACAGTTGTTTTCCTGTGATCTCCAAATGTCTGACAGTGGTCCATTAAAGAATAGTTCATAAATACCACGTTGTAAGGATCAGTTACTTCAGCAAAAATAATAATAATAATAATAATAATAATAATAAAACAGTTTTTCTTCTCCAAATTTATCTGGGAGAAACCATGACTGAAAAACACAAGCACTGGAACACACTTTTGGTACAACTGCAGTGATTTTTCATGTCTTCTTCCAAGATGTTAAAATTCTACCTTTTAGCAATGTAAAAAAAAATCATTTAGAAATTCTGTGTTGGCGTCCACCTTGCTATGTTTCTTGGCAG
Seq C2 exon
TGATAAAAGCAAGAATCCTATCGGCTCATGACAAAGGGACGCATGCAGAAGTTGTTGTGAAAGTGAAGAAGGTCCTGAAATCCAGCAAAGTGAAAATTGCTCGGAGCAACAGAAGCATTTACCCAGAATCCTGGACCAACAGGGGATGCACTTGTCCCATTCTCAATCCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006325:ENSGALT00000010226:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0175916=NTR=PU(9.3=41.7)
A:
NA
C2:
PF0175916=NTR=FE(52.8=100)
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:
AGTGTGTGTGCAAAGAGAAGGT
R:
GACAAGTGCATCCCCTGTTGG
Band lengths:
222-1371
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]