GgaINT0112596 @ galGal3
Intron Retention
Gene
ENSGALG00000022962 | A2M
Description
NA
Coordinates
chr1:79424253-79426468:-
Coord C1 exon
chr1:79426394-79426468
Coord A exon
chr1:79424419-79426393
Coord C2 exon
chr1:79424253-79424418
Length
1975 bp
Sequences
Splice sites
5' ss Seq
TCGGTAAGA
5' ss Score
10.53
3' ss Seq
TTATTTATTTGTTTTTTAAGCAC
3' ss Score
7.6
Exon sequences
Seq C1 exon
GGAGGAGTAGAAAATGAGCTGTCACTTTCTGCCTATATCACCATTGCCTTGCTAGAAGCTGGGCACTCCGTGTCG
Seq A exon
GTAAGAAGGCCTTTCACTACTATTATTCATCTAGAATTAGTTCCCAGTTGTTACCTTGGATTCTGTACTTGCTACAAATAGTCTAGGTAGTAGAGAAAGACAAAGAGATGGAGAGAGAAAGCTCTCAGTTAACATTACTCGGCTCTCAATGACACCGTTTAGCTACCAGTTAAAAAAATCTTTCCAGGCAGTGGCACACACACTATGGCTTAGCCTCAAATATGGCTTAGTCAGGAAGATAAAGTATTACACATAAATGCATAAAATCTAAATGGAACTTAAAGCCATATTGGGAAAAGGAAGATCTACCAGAGTGAAAAGCATATTTGTCCTTTGAAAGTGGCTACTAGAACAAAGGAGAGTACAGCTGAGATGTTAGACTTCAGTATATCAGTTTCTCTGCCTCTAGTTTGTCATGTACTTTTTGAGAAACTTCCTGATTAAGAAGCACATTAATGAGGACATGGAGTCAACAGTAAACTTATTTCACTTGATGTAAACCTACGAGAAATGGTCCAAAAGTAATGCCTCCCATTTTATTATGTTGGTTCATGAAGCCAGAGGTGGATGTTGGTGGTATAGTGGTAGAATTTGAACCTTCCTGCCAATATGCCATCAAATTTTATTGCTGTGCAACATATGGAAGCAGATAGGCAGTCTGACAAAATGAGGTCTGACATGGAAGTATGTATGAAGCAAAGATGTGTCACTGAATTCCTCCATACAGAAAGAATTGCACCTACTGACATCCATCAATGCTTGCTGAACATTTATGAAGACCAAAGAGTGGATGTGAGCTCAGTGAGGCAGTGGGTTGTGCGTTTCAGCAGTGGTAACTGTAACTCGGCTCCACAGCCAAGGGGGTCATGGGTCTCTTGAACAGTTGTAGGAGATACAAATGGAAAAGTACTAGCTTGTTATGATGGCTGTGAGCTCGGGTGCTATGTGCACAACACAGGCTATGAGATCTTGAAGCTGTCAAAGCAGGAAGACAAACTGAGTTTTTTTAAATCTTCAGTTTTAAAATCTTCAGAGTTTTTTAAATCTTCAGTTAAGATAAGGGGGTAGCTCGCCTGGGAAGAGATTAAGACAGTGGAATGGTATGAAAACATGCATGACCAATAGTATTGTTAGGCAGGAGGCTTTTCGCAATGCTCCAACCAATTACAAGCTGACGTGCGTTTGCCACAATCTATATATGTGTGTAGTGTAAGTAACAAATAATAAACGGAGACTCTGATGCACTCATATTGGGTCATGTCATCACTCCAGTTTCGAACCCTTGGGGGTCTGCGACAACCCGGGACCAGAGAGGTCCACAACAGATAACAGCAGCAGTGGGTCATCTCAGCTGGTACAAATTTTTATGAGCACGGTATGCAGGCTCTTGTTCATCACTGGCAAAAGTCATAGCTAACAGTGGTGACTATGTTGAAAATTAGTGTTTTGTAGCTGAGAATTTGCTTTGTCAAATAGTGTTATTGTGGCTGTTGTAGTTTCAATGAAAATAAATAGGAAGCATCATTTTCAACACAACCTGTGTAATACAACTCCACAGAACTGAAGTAAAATTTCAGTAGGGTCACTGAGGATAGAGACTATCCCAAAAATATTGGAATTGTTCAAGTCAACAGACTCTTGGTTACGAAAGTACAGTGTGAATTGTTTCCATAGAGGTAAGCAGAAGGAATTAGGTGTGAAAGAAGCAGAGTAGTCTTCTATTTATCCACCTACATCTTCAAGAACATACTGAAAATCTGCTCTAACAGTATGAAATCTCAGTCTGAAATCCTTCCTTAAAGAGTCCTGTATTCTCTCTCCCAAGGTTACTATACAAACTTAAGTCTTATTGCCACGATGACGACAGGATGAACAAGAGGTTTAAAGAAACTTTTGATCTAGTGAGGACAACTGTTCAGAATTCAGACACGTGTTGTTTTGGTTGTTGTTCTTATTTATTTATTTGTTTTTTAAG
Seq C2 exon
CACACAGTAATCCGAAATGCCTTTTATTGCCTGGAGACTGCATCTGAAAAAAATATCACTGACATTTACACGCAGGCACTTGTGGCCTATGCCTTCTGTTTAGCTGGCAAGGCAGAAATATGTGAATCATTCCTTAGAGAACTACAGAAATCAGCAAAGGAAGTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000022962:ENSGALT00000037194:27
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:
PF076789=A2M_comp=FE(9.7=100)
A:
NA
C2:
PF076789=A2M_comp=FE(22.2=100)
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:
GGAGGAGTAGAAAATGAGCTGTCA
R:
CAACTTCCTTTGCTGATTTCTGT
Band lengths:
241-2216
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]