GgaINT0127832 @ galGal3
Intron Retention
Gene
ENSGALG00000004333 | E1BY40_CHICK
Description
NA
Coordinates
chr18:7987537-7988764:-
Coord C1 exon
chr18:7988560-7988764
Coord A exon
chr18:7987696-7988559
Coord C2 exon
chr18:7987537-7987695
Length
864 bp
Sequences
Splice sites
5' ss Seq
ACGGTACTC
5' ss Score
4.58
3' ss Seq
TCATTTCCTCCATCTAGCAGGCC
3' ss Score
6.55
Exon sequences
Seq C1 exon
GAGGTCCTTTTCCCTCTCTTCTTCTTGTTCTGGCTGATCCTGATGAGCATGATGCACCCACACCGGTGGTACGATGAGGTCCCCAACTCCAACCTGGGCGTGCTGGACCCCTCTGTGCTGGTGAACTTGGTGGTTGGGTACACGCCGCCCACCAGGATGGCCAGGGAGATCATGAGGAAGGTGGCTTACGATAACTTCGAAGACG
Seq A exon
GTACTCTGAGCTAAGCAGTTGGCTTTTCTGAGCTTGTTTCCTGCTGTGGCTTCTGTTTAGTGAGGCAGCTCGCTCTTGTTGCTAATGATAAGGGGGAAAAAAAATCCCATCTCAGATAAAGAACAGAATGTGAGGGTGGTTTTTGCTTGATTAGAATGTGTTCTGGCACTGCCTCCTGAGCGTGCTTCCCGTGCTGCTGTGGCAGCAGCGAGTGGTTTATAGCTACAGAAGGAGTTCTCAGAGGGCCCAAAGAGCCCCTGAACCTCTGCAGGGCAAACTGCAGCTGCCCATGGCGTCCCTGTGCGTGTTCAGGAGGTGCTGCTGCCCTGCAGACTGTTCACATTGAGTTTTCTATCCCAGTGCTTCTATCCAAGCAGCATTTCTTTTTTACTGATGATTCCAATTAACACTCTCACCTTTTCTTTTGACAAGCGTACACAAACATTTTTAAGTGCTTTGCCCACCGGGCACATCTAGCAGAAACCAATATATCCCAAACCATTCTGATGCATTTTTGGTTTGGTACCCTTGATTGTCTTCCTGGTGGTGTTCATGCTTCAAAGGTACCACTGGGAGCAGCACAGCCCAACGCCTGTGTTTTCATTATGGGTATCCTCATCTGCTTTCTGCCTTTATGTTTCCCTTTGGTTCACCCACCTCAGTACCAAGCAACAGTTCTGCAGCTTCAGGAAAATGCATCCTTTACTAGGACAAAAATATAGCTCTCTCTCTATATATATATCCCAAAGCAAATAAATCATTAATGATTAACATGGCTTTTCTTTAAAATAAGCAGCATCGCACCCTTTTCCTTCCTGCAACCCCAGCACGTAAATCAACATCATCATTTCCTCCATCTAGCAG
Seq C2 exon
GCCTCATCACAGAGGAGTATTTAAGTGAAGAGGACCTGGAAAAGGCCAGTGCTTCCAAATCCTCCAACTTCGTGGGCGTTGTGTTCAAGGATGCCATGTCCTACCAGCTGAGGTTTCCTGACATGGTGGCTATGGCTTCTGTCTATACAGAGTCGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004333:ENSGALT00000006907:2
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:
PF126982=ABC2_membrane_3=FE(17.5=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(13.6=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:
GAGGTCCTTTTCCCTCTCTTCT
R:
AGACAGAAGCCATAGCCACCA
Band lengths:
349-1213
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]