GgaINT0111498 @ galGal3
Intron Retention
Gene
ENSGALG00000022702 | E1C4Q6_CHICK
Description
NA
Coordinates
chr1:199647062-199648218:+
Coord C1 exon
chr1:199647062-199647688
Coord A exon
chr1:199647689-199647760
Coord C2 exon
chr1:199647761-199648218
Length
72 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGC
5' ss Score
9.1
3' ss Seq
TTGCCCCTCTCACCCCGTAGGGA
3' ss Score
11.93
Exon sequences
Seq C1 exon
GCGCACACTGGTGCCAGCCCGCAGCCCCTCACTCCAGTGGGGTTGGGGTGACTGTGGCCGCCCTCCCCCATCCCCCCTGGCCATCCCTGCCCAGCGCCGATGAGCGTTTTGGTGGCTCCATGGAGACCAATGTGGTGCTGCGCTCCGACGGACACATCATGTGGGACAGTCCGGCCATCACCAAGAGCTCCTGCAAGGTGGACGTCTCCTACTTCCCCTTCGACGGGCAGCAGTGCCGCCTCACCTTTGGCTCCTGGACCTACAATGGGAATCAGATCGACCTCCGCAACCTCCTGGACACGGGCGACCTGACCGACTTCGTGGAGAACGTGGAGTGGGAGGTGCTGGGCATGCCGGCCACGCGCAACGTGGTCACCTACGGCTGCTGCTCGGAGCCCTACCCCGACGTCACCTACATACTGCTGCTCCGCCGCCGCGCCTCCTTCTACATCTTCAACCTGCTGCTGCCCTGCGTCATGATCTCCTTCCTGGCGCCGCTGGGCTTCTACCTGCCTGCTGACTCCGGGGAGAAGGTGTCCCTGGGGGTGACGGTGCTGCTGGCGCTCACCGTGTTCCAGCTGCTGGTGGCAGAGAGCATGCCGCCCTCGGAGAGCGTGCCGCTCATCG
Seq A exon
GTGAGCCGAGGGGAGGGAGTGGGGCGCCCAGCGGCGAGATCCGTGCCCCTCATTGCCCCTCTCACCCCGTAG
Seq C2 exon
GGAAGTACTACATCGCCACCATGACCATGATCACCGCCTCCACTGCGCTGACCATCTTCATCATGAACATCCACCACTGCGGGCCGGGTGCCCGCCCGGTGCCGCCCTGGGCGCGCCGCCTCATCCTGCACCACCTGGCGCGTGCCCTCTGCGTCTGTGAGGTGGGCGAGAGCTGTGGCCGCCCCCAGAGAGAGGGCACGGGAGGGATGGGGCCACGGGACCCCCCCGGGGAGGGCGTGGAGCCGGGGCTGTGCCCCCGCAGCCGCTGCCTCTGCCACCACCACGCGGTGCTCAGCAGTGTGGGGTACATCGCCGGCGTCTTCCGACGGCACCGCACCGCCCAGCGCCGCGCTGCAGAGTGGAAGAAGGTGGCCAAGGTGATGGACCGCTTCTTCATGTGGGTCTTCTTCCTCATGGTCTTCCTCATGAGCGTGCTGGTGATTGGCAAAGCTGCCTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000022702:ENSGALT00000036366:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.068 A=NA C2=0.112
Domain overlap (PFAM):
C1:
PF0293118=Neur_chan_LBD=WD(100=56.7),PF0293211=Neur_chan_memb=PU(45.5=26.7)
A:
NA
C2:
PF0293211=Neur_chan_memb=PD(54.8=45.1),PF0293211=Neur_chan_memb=WD(100=41.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCATGATCTCCTTCCTGGCG
R:
TGGTCATGGTGGCGATGTAGT
Band lengths:
181-253
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]