GgaINT0112576 @ galGal3
Intron Retention
Gene
ENSGALG00000022962 | A2M
Description
NA
Coordinates
chr1:79441041-79442673:-
Coord C1 exon
chr1:79442589-79442673
Coord A exon
chr1:79441153-79442588
Coord C2 exon
chr1:79441041-79441152
Length
1436 bp
Sequences
Splice sites
5' ss Seq
AGTGTAAGT
5' ss Score
8.46
3' ss Seq
CCTATTTCTTCTTCTCCTAGGTA
3' ss Score
9.96
Exon sequences
Seq C1 exon
TGTTGCCAAAATTTGATGTTACAGTCACTGCACCAGGAAGTCTTACAGTCATGGATTCAGAATTGACAGTGAAAATCTGCGCAGT
Seq A exon
GTAAGTACCAAGTGCAGAGCGATTAGAAAATATGCCAGAAAGCAAGAATTCATCAGATACCGGGGAAAGAGACAGGCCTTAGAGAAGATACCAAAATTAATAGGCTCTCTGAAGAGACTGGTTAGGGCTGACTTGATGTTTAGAGCTTTCATTTATTTGTGATCTCTTCTCATTTTATTGTATGAGTATTCTCTTCACACTGGTATTTAGTGGGTTGACCCACCCTTTTTAAAATAGAATGTGTCTCTCAGCAACTCACTTCAGAGGAAGGCCTTCATACGGCAGACCACCATTAAATTCTAGCGGTTAAATTCTAGCAGTCTTAAAGTTCTGGCTATCTTTAAAACCTAAACGAACTTCAATAAGAGCAAATATAGAGTTTTGCACTTAAAGAGAAATAACCATAGGCAGCAGTGTGGGTTAGGGGATGATCTGCTAGAAATTAACTCTGAGAAGAAGGACCTAAGGATTCTTGTGGATAACACGTTGACCTTGACCCAGAAGTGTTCACTTATGGACAAGAAGGCCAAAGATATCCTGGGGTCTATTAAAAGGGGTGTGGCCAGCAGGCAGAGGAAGATGATCCTTCCCTTCAGCTCTCCCCTGGTGCAGCTACATCTGAAATACTGTGTCCAGTTCTTAGTTCCTCAGTTCAGAAAAGGCAGAGATCTACTAGAGAGTTCAGTGAAGGGCCACCGAGATGGTTAGAAACCTAGAGTGCTTCTTGTATGAGGAAAGGCTGAGAGGCCTGGGGACTCTTCTATCTTTAGATATTGAAAGGCCACTATCTCCCCAGAGCTGTCTCTTCCCCAGGCTGAACAGTCCCAGCTCTCTTAGCCTGTCCTCATAGGGAAGGTGTTCCATCCCTTAGATCATTGTTGTAGCTTTTCTCTGAACATGCTCTAACAGGTCTGTGTCTCTCCTGTACTGAGGACTCCACATCTGAATGCAGTACTCCAGGTGAGGTCTTGCCAGCAGAGTAGAGGGCCAAGACCATCTCCCTTGACCTGCTGACCACGCTTCTTTTGATGCACCCCAGGATATGGTTGGCTTTCTGGGCTGGCATTGCTGGCTCATGTCCAGCTTGCCATTCTCAACTTGCAGTTACGAGAAGTTTAATTTTTATCTCAGTAAGTCCAGAACTTCGCTCTAAGATGAACAGTGTAGAAAACAGTCATCATATAGTAGTCATGTTTGACTACCATCCTTATAGATGTATTTATTTTGATATTTACAGTGAAGTAAACCTTATCAGTTTTTCAACTTCACATTTGTATTATCTTTCTGGAACAGAGGGAGAATTAGGGAAATGCCTGTGAAATTACTCCAGTGCCTGGCTTGCCAGGTCACTGCTCATCCTGGGTCTATTCCTGAACAGGTTAATTTAAGTCAGTTTTTCAAGCATCACCTCACAGACCTATTTCTTCTTCTCCTAG
Seq C2 exon
GTACACCTATGGTCAGCCTGTTGAGGGGAAGGTCCAGCTCAGTGTGTGTAGGGATTTTGATTCATACGGGAGGTGCAAGAAAAGCCCAGTTTGTCAATCATTTACCAAAGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000022962:ENSGALT00000037194:7
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:
NO
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:
TGCCAAAATTTGATGTTACAGTCACT
R:
TTGGTAAATGATTGACAAACTGGGC
Band lengths:
190-1626
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]