GgaINT0082225 @ galGal3
Intron Retention
Gene
ENSGALG00000008515 | ATL2
Description
NA
Coordinates
chr3:17392331-17394245:-
Coord C1 exon
chr3:17394118-17394245
Coord A exon
chr3:17392388-17394117
Coord C2 exon
chr3:17392331-17392387
Length
1730 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGC
5' ss Score
10.22
3' ss Seq
CCTTTTATTTTTGATTCTAGGCT
3' ss Score
9.08
Exon sequences
Seq C1 exon
ATATAGATGAGGATTTTAAGAAAGAGCTGCGGAATTTGGTACCATTACTGCTTGCCCCTGAAAACTTGGTAGAAAAAGAGATTAGTGGATCCAAGGTGACCTGTAGAGATCTTGTAGAATACTTCAAG
Seq A exon
GTAAGCAAACTCATGCTAATTATTTTTGTTAATGGCTTGAAAGAAAATATTCTAATTTTAGGATATCTTGTTCCCAGAGAAGATAAAGGTATCTAGGCTGACTTTCACTGATCATCTCAGTTTTACTTTCATTTCATTATTCTGACTTTCCAGAACTGGCACACAGCTTAACAAAATAGCTCTTAGCAATCTGTTAGCAATTTTTTTTGTAAATAAGCTAAAATACTTCAAGTTCTATTAGACGGAGATTTTTTTCCTTTGTTTTTACTATTTTGAGAATCTAGCTTGTCTGGATTTATGTGGGTGGGTGGTTTTTTTTTTGCTTTCATTGATGGATAGAAATCCAGCTCTTAAGCTTCTGGGTGTGCAGTAAAAATCTTTTGTTTGATTTTCTGCCCCTCCAGATTTGTAATAGGCAAGGAAGAAGTTTTCTTACACTCACGTGTGACACCATTGTATGCTATAAAATCTGTGGGTGCTTGCCGCTATTAAACTCTTGAGCTGTTCTGATATCTTGATGACATCAGTAGTAACATAGAATCATAGAATCACAAGGTTGGAAAGAACCTACAAGATCATCTAGTCCAACCATCCTCCCCTTACCCTTGCTACCACAAGCCACTAAGCCATATCTCGTAGCTCCTCATCCAGATGCCAACTTGGTAGCATGATTCCTACGTCACCAGGAATTGGTCTGGTGTATAGCTCTTTTTGAATTGGAAGGACTTAGCTGGCTTTATATGAGAAAGTAGCGTCCCCAGTGACATTAATTTACATTGCTACTACTGAGCACACGTGTTAAAGGCAAGTCAGCTGATGTTATGGAAGTATTTACATGGGGTGGAATCTGAGACCAGAACTCTAACACTTAAAAGATGTTGCTTTATGTATGCTTAGAAGATGATCCTTTATGGGAGGCATGATGTGGAATGCAGTACTCATGGCTGCTCTGACTAGCATAAAATCAACTCTGAAGCTGATGTGCTCAGTGTCTTGCTGTTTACATGGTTGTATATTTCTTGCTCCATTTCCTTTTTTAGTAAGGCTTGATCCCGTGTGGTGCAGGGAGTATGTATTCAACGGCAGTTTGAAAAGGAGTACATCCTAAAACTGAGTGTGAAACCTTGGCTGTTGAAAAGCAGTCTGATTCATGATGCAGTAGCCAGTCTGGGAACAGTTATGCAGGATGCTGTGGATATACTCTGCATAATTGGAGAAAAGTGTTCCCTTGTCTGGATCTAAAGCTGAAATCGTGAACTCTGAGTAGGAAACCTGAGGGTTTTCACTTGGAGGAAATAGCTACTGAAGTAATAGCTGCCAGAGAGTCAAAAAAAAAAAGTACTAGCCAAATTTCATAGTTTATTGGTGCTTGCATGTTATGGAAGCTTGCCAGTGGCTATTGAAAGAGAACCAATTTGATAGAGGTGAACAGCTTATTTTTAATACCAATAAAATCATGTTACTTGAAATGTTTTGTTAAAAAGTACTGCTTCAATTTGCTAAAACTGGAGATTATAGGAACTTCATGTTAGGCTTCTGAAATGTAAAGGGGTTTAAAGCACTAGGGATAAATGAGCAAGTGACAGATTTGTGTGGAGAAACTTGCTTAACTGAGTGTTTAGCACTATGACAAAATAATAATTCATGACCTTTGTCTTTATGTAATTCTTTTCTTTCCCTCTCACTCATATGTGCTTAAGAAATAAGAAACCTTTTATTTTTGATTCTAG
Seq C2 exon
GCTTACATTAAAATCTATCAAGGAGAGGAGCTACCTCATCCAAAGTCTATGCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008515:ENSGALT00000013868:8
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=0.105
Domain overlap (PFAM):
C1:
PF0226314=GBP=PD(9.6=60.5),PF028419=GBP_C=PU(10.6=32.6)
A:
NA
C2:
PF028419=GBP_C=FE(13.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TAGATGAGGATTTTAAGAAAGAGCTG
R:
CTGCAGCATAGACTTTGGATGAGG
Band lengths:
182-1912
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]