GgaINT0112582 @ galGal3
Intron Retention
Gene
ENSGALG00000022962 | A2M
Description
NA
Coordinates
chr1:79436859-79437564:-
Coord C1 exon
chr1:79437507-79437564
Coord A exon
chr1:79437005-79437506
Coord C2 exon
chr1:79436859-79437004
Length
502 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGT
5' ss Score
10.65
3' ss Seq
CTCTTCTTCTCAATTAACAGATC
3' ss Score
9.77
Exon sequences
Seq C1 exon
GGGATGGCAAAAGGCAAGATTGTCCTCACAGGGGAAATTAAAGTTAATATCCAAGCTG
Seq A exon
GTAAGTTAAGTTGTCATCATCAGGTTTCTGCGTTTAAAAAATAAATGGGTAAACTGGGGAACTAGGGACCAAGACAACATTTCTTGGATGTGCACAGCAGCTATGGGATGGCTGTATCCCTTTTCACCAATGGATGTGTGCACGATTCTATCACCGCAATTAAGAGTACAATAAAATCTGGCATAGTCCAGAAACCAGTTTCAGGTATGAGTCAAGAAGCAGTGTCACGTAAAGATCTTCCCAAAGGATTATGGAGGGAATACAGTGTCTGGTCTGGGGGGCTGTCTGGCCACATGTTCAAACTCTCAGTAAATCTGAAGGCATCTGGATCTAAACTCTGACATGCCACCTCCTGGCCACTGTTACTCCAGGATTTTTCAGTTTATAGTCCAACTGCAGATTGCTCCTTGGACTGGTACAAATGCATGTCTGCCTATATGGTGGCTACAGCAGCAGATCTTTGTGTTTGTCTCTGTATTAGTCTCTTCTTCTCAATTAACAG
Seq C2 exon
ATCAAAATGGCACCTTCATGATTCCACTTGTGGTCAATGAGAAAATGGCTCCTGCCCTTCGGTTGCTTGTATATATGTTACATCCTGCCAAGGAGCTGGTAGCAGACAGTGTACGATTTTCAATTGAGAAGTGCTTCAAAAACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000022962:ENSGALT00000037194:13
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:
PF077039=A2M_N_2=FE(12.8=100)
A:
NA
C2:
PF077039=A2M_N_2=FE(32.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAAAAGGCAAGATTGTCCTCAC
R:
CTTGTTTTTGAAGCACTTCTCAATTG
Band lengths:
198-700
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]