GgaINT0112592 @ galGal3
Intron Retention
Gene
ENSGALG00000022962 | A2M
Description
NA
Coordinates
chr1:79428113-79429006:-
Coord C1 exon
chr1:79428923-79429006
Coord A exon
chr1:79428290-79428922
Coord C2 exon
chr1:79428113-79428289
Length
633 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAAC
5' ss Score
3.22
3' ss Seq
TGGCATCTTTTCTTCACCAGGTG
3' ss Score
10.26
Exon sequences
Seq C1 exon
ATGATGTCATTTCTCAGGATGTTGCTATAGATCTACCTACAAATGTGGTAGAAGGATCACCCAGACCTTCCTTTTCTGTTGTTG
Seq A exon
GTAAACATAAAATTAATGAAACATTAAGAAAATAAAACTTTAAACTATGAAATGAAAGCTTTGTTGGGCTTCAAGATGTGACTTTTATTTCCTTCTGTGGGAAATATTGAGCAAAGAGACTGATTCTTATCTTGTCCAGCAATGTTCTTTCCTGCATCTAAAAATCAGTGACATCCTTATTCACATTTCTGTTCAAACTTATTGCATTTGAATGTTTTGCCTGGAAGTAGCACAGTTCTGAGTGTTCTACCAGACTCATGCCCGTAAGACTTTCTTCCACTCACTCGTGTACAAACCAGAGATGCTAATGGAAACTTCTTGGTCTTGTACTGGCCTTGGTTTCATTATTTTAATAGACAGCAAGTATCTGCATAAAGTGGCACCAAAATAGGTACTATGTATTTCTGGAATGGGCAATTAAATCTAAGTAAGAAAACGCAGGGCAGGAATGTATTTGTTAACTTGTCAAGCAGAACAGAACAAATTGCTGAGAAAGCACTGAGAACTTCAGGCTTCAGTACCACAGAGGCTTCTAACCCAGCCAGGTTTTCCATGACTCTCCCTACTGAATGAAAATAACTATTTCAGTGGCCATGAGTTGTGCTGATTCCCCTGGCATCTTTTCTTCACCAG
Seq C2 exon
GTGACATCATGGGCACTGCCATTCAGAACGTGCACCAGCTCCTTCAGATGCCATTTGGCAATGGGGAACAGAACATGGTCCTGTTTGCACCCAATATCTATGTACTGGATTATCTGGACAAGACAAGACAGCTGAGTGAAGATATGAAGTCCAAGACCATTGGATACTTAGTGAGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000022962:ENSGALT00000037194:23
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:
PF0020717=A2M=FE(21.7=100)
A:
NA
C2:
PF0020717=A2M=PD(34.9=48.3),PF105694=Thiol-ester_cl=WD(100=51.7),PF076789=A2M_comp=PU(6.2=1.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
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:
TGTCATTTCTCAGGATGTTGCT
R:
CGCTCACTAAGTATCCAATGGTCT
Band lengths:
257-890
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]