GgaINT0127847 @ galGal3
Intron Retention
Gene
ENSGALG00000004333 | E1BY40_CHICK
Description
NA
Coordinates
chr18:7977412-7978601:-
Coord C1 exon
chr18:7978482-7978601
Coord A exon
chr18:7977614-7978481
Coord C2 exon
chr18:7977412-7977613
Length
868 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGA
5' ss Score
6.71
3' ss Seq
GTTCCTCTCTTCCATCACAGATT
3' ss Score
10.14
Exon sequences
Seq C1 exon
GCTTGTTCTCCGACCTTGACACCCATTCCCATCTGGGTGTGATTTCTTATGGCGTTTCCATGACGACGCTGGAGGATGTCTACCTGAAGCTGGAAGTTGAGGCAGAGATTGACCAAGCAG
Seq A exon
GTGGGACAGCCCATGGCACATTCCTAATTTCCCTTGTATTTGGTGTGCTCTCAGTTAGTGGAGCGGTGTCCCATGGCCGCTGGGAGGAGGTTTGCTGCAGAGGCAGGAGTTAAAAATCCCCTCACAGAGGGCTGTGTCCAGCAGCACAGGGCAGCTTGGGTCTCATGTTGTCCCAAGTGTATGAAATATGCAATGGGAGAAACACAGAAAAGCAGTGAGCTGAGTGGGGAGAGGTTCTGGGAGGGTTGGGTACATGTGCTGCACCGACTGTCTCTTCTGTGATGAATTTTTCATCCAGCGTACTTACATCTAACTTCCCTGATTCATAGTTGAGCTTTTGAGGTCTACTTTTGTTGGTGGTGGTGGTTTTTAAAGTGCTTTATTTACGTAATGGAAATTTGGGGAAATGGTAAGGGCACAACATAAAATTCATCTCCAGCCTTCTACGTGGGTGTGAGGAGGTTCAACAGCTGGCTGTGCTGAAAAATGCTAGTGCACACCTAGGCTGATGGAATGAGACCAGGGCAAGTCTGCATCATCTGAGTGTTTGTAGGCTGCTCGTTTTGCTCTTCCTAGGATGGAAATTTGCATCAGCTGCTTTCAGTGTCTGATCTGTGTGCAGTTCAGAGCTTTGGGGTGTATTGGTGTCATCATGGTTGAGAGCTTTGGGGTGTATTGGTGTCACTGGGGTTCAGAGCTTTAAGGTGTGTAGTGTCTTGGTGCTACCATGAGCCTGGGGTGGGAGCAGATGGTTTCTCAGTAGTGATGGCAAAGAGTCAATGGCCCATGAGCTTCCTCCAGCCCCATGGCCTCAAGCCATGCAGCTCTGTCCATCCTCCTGGTACCGTGTTCCTCTCTTCCATCACAG
Seq C2 exon
ATTACAGTGTGTTCAGCTCCCAGCAGGCGCAGGAGGAGACGGACATGAGCTCGCAGGATGACATGGAGCAGAGCCTGCTGATGCTGCCAGAGGCCAGGTCAGCCCCACAGAGCAACACAGCCCTGTGGAAGAAGCAGGTTTCCACCATAGCCAAGCTGCACTTCCTCAGCCTCAAGCGTGAGAGCAAATGTGTCAGAGTGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004333:ENSGALT00000006907:17
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=0.118
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF126982=ABC2_membrane_3=PU(1.4=7.4)
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:
GCTTGTTCTCCGACCTTGACA
R:
ACTCTGACACATTTGCTCTCACG
Band lengths:
319-1187
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]