GgaINT0037607 @ galGal3
Intron Retention
Gene
ENSGALG00000018634 | E1C4W1_CHICK
Description
NA
Coordinates
chr8:27465867-27467415:-
Coord C1 exon
chr8:27467255-27467415
Coord A exon
chr8:27466044-27467254
Coord C2 exon
chr8:27465867-27466043
Length
1211 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAG
5' ss Score
8.68
3' ss Seq
TTCTCTTTTTCTTTCCAAAGCTG
3' ss Score
9.04
Exon sequences
Seq C1 exon
GAAATCCTTTCAACCCTCACCTTAAAATCAACAATGCTGTTTCAAACGTCATCTGCTCCATCACCTTTGGCAATAGGTTTGAGTACCATGATGAGGACTTCCAAAACTTGCTGCGGCTGATGGATGAGACTGTTACCCTCCATGGGAAGATAATGAGCCAG
Seq A exon
GTACAGCCCTTGTGCCCCCAGCACGGACAGTGTGTAGATTTGAAAGGCTATTGTTTCTTCTCTGGAGTCCACAGCAAAACCTCAAGCACTTTCTTAGATTCAGAGAATCTCTCAAGTTAGTAAAGATAAACAAGGGCCCTCAAGTCCAGTTCCTGGCTCCACGCAGGAGCTGAAATCTGAACCCTATTTCTGAGAGCACTGCCCAAGCAAAGCCTCAGCTCCTGCAGCTCAGAGCAATGCCCACTGCCCTGGAGAGCTGTCCCATGCCCACTGCCCTCTGGGGCAGTGCCTTTCTATAACTGATAACCTGATCCTCCCCTGACACAGCTCTATGCCATTCACTCTGGCCCTGTTGCTATCACCAGAGAGCAGAGGTTACCACTGCTCCTCTACTTCCTGTGAGGAGCTGCAGGCTGCCATGATGAGCTGGGGGCCACCGTGAGGCCTCCCCTCAGTCTTCTCTGGTTAACAAAACAACAGACCTTGGCACTCCTCATACATTTGCCTTGAAGACCCTTCTCCATCTTCATAGCACGCCTTTAGAGCTGTCTCATAGTTTTATATCTTTATATATTGCTGCACCCAAAACTGCACACACTGCTCAAGGTGAGGCCATCACTAACCGTAGAGGGCTGGCCAAGCCCAGGAGATGTTTCCCTCTGCTCCGGGGGCACGAGATTTTCCTTGCTGCTTCCCACAGCTGTGTGGCCCTGTCTACCCCATGAGGCATCTTGGTGAAGATGCAGCCCTCACTAACATCAAAGCATATCTATCTCATGTAGTTTTCCAGTGCTTTGGGAAGGAACTGAACGTAGTAGAGATTTTGGGCAGGTCTCTAGGAGAGGTTATGGGAAGGAGCAGTGCTAAGGTTGCCATGGACATCTGTTGCCATTTGTCATACCATTGCACAACGTCCATCTTCATCTGATTTCTTTCTACTGTATTTTCAAGCTGTGCAATGCTCACATTGCTCTCTTTCACTCAATGTCACCACATCCACTGAGTGCCAGGCTCCCTGCTGTGACTCTGCAGAATGCACTAGTCTCTTTCACCATGGAGATATCAATCTTTTGACATGCTCTTCTGGAGATGAGTTAATTCCATCTACTCCAGCAGTGTAGCATTGTGGCTTTGCAGGCTTTTCAAGTTTTGAAAACATAAGGGGTTTTCAGTCCTTTATTGAATTTGCTCTTCTCTTTTTCTTTCCAAAG
Seq C2 exon
CTGTACACATTTTTCCCCTCCATAGTAAAGTACCTCCCTGGATCCCACCAAACAGTTATCAAAAATGGGAAGCTCATGAAAGATTTTGTGTGCAATGTGATCAGCAAACATAAGGAAGATCTGAACCCCTCAGAGAGCCGGGACTTCATCGACAGCTACCTGCAGGAGATGGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000018634:ENSGALT00000017753:4
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:
PF0006717=p450=FE(11.7=100)
A:
NA
C2:
PF0006717=p450=FE(12.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAAATCCTTTCAACCCTCACCT
R:
TTGGCCATCTCCTGCAGGTAG
Band lengths:
337-1548
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]