GgaINT0112580 @ galGal3
Intron Retention
Gene
ENSGALG00000022962 | A2M
Description
NA
Coordinates
chr1:79438068-79438854:-
Coord C1 exon
chr1:79438696-79438854
Coord A exon
chr1:79438296-79438695
Coord C2 exon
chr1:79438068-79438295
Length
400 bp
Sequences
Splice sites
5' ss Seq
AAAGTGAGT
5' ss Score
8.4
3' ss Seq
CTTCTACCTCTCCTAATCAGGCA
3' ss Score
7.45
Exon sequences
Seq C1 exon
ATCAAGCTGGTAGACAAAGACAACTCTCCTATTTCCAATAAAGTTATTCAGCTATTTGTTAATAACAAGAATACACACAACTTCACCACTGATATTAATGGCATTGCTCCGTTTAGCATTGACACATCCAAAATATTTGATCCTGAGCTTAGTCTGAAA
Seq A exon
GTGAGTACTGAACAAGATGGGAGGGGAGGGAAGGAGAGGAATAGAATGGGGGAGAGGGTGACAGAAACAGAGACAGAGAAAACTGATCTTAAACTGAACCCAAAATTATGAAATGAGGTTTGAATTCTGATAATAAAATATATTTTGTCTTATTTCACGTTCTAGAGTTCTCAAAAAAATGCCATAAAAGAAGTGAGAAAAGTACCTGAGTTGTTGCAATGCAGTGTCTTGCTGCAAGGCTGCAAGATCATTGTGCTACTTCTTCGTTACCTGTTTGGCTTTAGATGTGATTCTTAGATTTGTGGATTCTGTGAACTAATCTTTCTGATGTATGTGACAATGATTTCCCTAGTGAGCTATGTTTGTTTTCCTTTTCTTCCCTTCTACCTCTCCTAATCAG
Seq C2 exon
GCATTATACAAAACCAGTGACCAGTGCCATTCTGAAGGCTGGATAGAGCCTTCCTATCCAGATGCATCTCTCTCTGTCCAGCGCTTATACTCCTGGACTAGCAGTTTTGTGAGGATTGAACCTTTGTGGAAAGATATGAGCTGTGGGCAGAAGAGGATGATCACCGTGTACTATATCTTGAACACAGAAGGATACGAGCATATCAATATCGTGAACTTCTACTATGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000022962:ENSGALT00000037194:11
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:
NO
A:
NA
C2:
PF077039=A2M_N_2=PU(26.4=51.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Human
(hg19)
No conservation detected
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTGGTAGACAAAGACAACTCTCC
R:
TGCTCGTATCCTTCTGTGTTCA
Band lengths:
354-754
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]