GgaINT0039028 @ galGal3
Intron Retention
Gene
ENSGALG00000002803 | MTA1
Description
NA
Coordinates
chr8:4057040-4058095:-
Coord C1 exon
chr8:4057980-4058095
Coord A exon
chr8:4057192-4057979
Coord C2 exon
chr8:4057040-4057191
Length
788 bp
Sequences
Splice sites
5' ss Seq
ATAGTAAGT
5' ss Score
8.65
3' ss Seq
TCCACCTTTGTTATCTCTAGCCA
3' ss Score
7.63
Exon sequences
Seq C1 exon
TAACAAGCCAAACCCCAACCAGATCAATGTAAATAATGTCAAACCAGGAGTGGTAAATGGTACTGGAGTACAGGCACAGAACGCGGCAGCAGGACGGGCCTGTGAAAGCTGTTATA
Seq A exon
GTAAGTGACATGCAAATATGGCACTCGTGCATAGGGAGCAAGTGCTGTGCTGTAAGCAGGAAAGGAAAAGCTGTGTGGTGTGGGCGTGGGTGGCTGAGAAGACTTTGGAATGGCAGGGGGGGCAAATCTGACATAGCAGCACTTAAGCCAAGTGTTTTTTGAAGTCACTGGTTCTACATTGCTAAGCATAGTTACCAAGTACATAAAGGTGAGTTAGTAAATGTCCTACGCTATTGTGGGTAGCTATTGAGCAGAGATTTCAGTCACCAAGCTGTGAACTTGATCACTTTCCATAACTTTTAGTACATTTCAAAATATGGAATATCTCAGTATTGGATCTGCTGCCTGGTACTTATATACTGAGTTCTAATGCATGTCCTCCTTCACGGACAGCCTTTGGGTTCTGGGACGTGGGACTGTAAGAGTCACAGACTTGTCTTATGTTCTTCCATTGTAAAATTAACGTATGGGGAGTTCACAAAGAGTCTCCCATCCTTCCCTGCAGAAACTGTTGTCAACCAGTATGGCAGAATTCAGTTTTGTTGGCAGGAATTTCTCCCATCCTGCTGTGTTATTTCTGTTTGTGTTTTAACGGGGTTTTTTGTGTAGTTTCAGTGAAATAACAACTTAACACTGGTGATGACTGTAAAGCCATTGTGAGGGTTTTAAGGTCTTTTTGCACTGTCTTTATGATGTGGGCTTTCTTTTGTAATGGTTCTAAAGCAAATAAGCTCTGAAAAGCGCTCCCGTTTAAGGACATATATAATTTCCACCTTTGTTATCTCTAG
Seq C2 exon
CCACACAGTCTTACCAGTGGTATTCTTGGGGTCCCCCTAACATGCAGTGTCGCCTCTGTGCATCCTGTTGGACGTACTGGAAGAAATACGGTGGCTTGAAAATGCCAACTCGGTTAGATGGAGAGAGACCAGGACCAAACCGCAATAATTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002803:ENSGALT00000004434:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (disopred):
C1=1.000 A=NA C2=0.634
Domain overlap (PFAM):
C1:
PF0032022=GATA=PU(13.2=12.5)
A:
NA
C2:
PF0032022=GATA=PD(84.2=62.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACAAGCCAAACCCCAACCAG
R:
TATTGCGGTTTGGTCCTGGTC
Band lengths:
262-1050
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]