GgaINT0056654 @ galGal3
Intron Retention
Gene
ENSGALG00000012339 | ATL1
Description
NA
Coordinates
chr5:60464531-60466430:+
Coord C1 exon
chr5:60464531-60464962
Coord A exon
chr5:60464963-60466415
Coord C2 exon
chr5:60466416-60466430
Length
1453 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGA
5' ss Score
9.79
3' ss Seq
TCCCCCAATGCCTCTCGCAGGGG
3' ss Score
6.88
Exon sequences
Seq C1 exon
GTCTGTGGTGGGGACAAACCCTTCCTTGCACCCAGTGACCTGCAGACCAAACACGTGGAGCTGAAGGACGAAGCCGTGAGGCTGTTCCGTGGGGTGAAGAAGATGGGCGGGGAGGAGTTCAGCCGCCGCTACCTCCAGCAGCTGGAGAACGAGATCGATGAGCTCTACATCCAGTACATCAAGCACAACGACAGCAAGAACATCTTCCACGCCGCCCGCACCCCCGCCACGCTCTTCGTCGTCATCTTCATCACTTACGTCATCGCCGGAGTGACCGGCTTCATTGGCTTGGACATCATAGCCAGTCTGTGCAACATGATCATGGGCTTGACACTTATCACACTGTGTACCTGGGCGTACATCAGATACTCTGGGGAGTACAGAGAACTGGGCGCAGTAATAGACCAAGTGGCGGCGGCGTTGTGGGACCAG
Seq A exon
GTAGGATAAAGAGCTTTTCATTTAAGAACCAACTGACCGAACCCACATCCCCCTCCCTCCCCCCCCTGAGTTCTTAACCATTGTTTCCTGGGGCCTTTCCTCCTCTTCCAATGGCTGTTGGGTTTGCACGTAGGCTTGTTAGGTGCGGTGGGACAGTGCCCTTCAGTCCGTGCCTTAGGCCTTCCAGATGGGGAAAGCAGGGCCAGAGGAGTGTTTTCAGGTTGGGTTGTGGAGGTGATGATGAGGGGAGAAGTCTTAGGTCCGGGTGGCTCTCTGAGGGTAGGAGAGCGCAGTGCGCTGTAGCTGGCAAAAGCCCTGGGCTCAAATCTGATCCCCACAAGCTATTTTGTTCTGCCTTTTTCTGCTTGTTTTACCCATCCCAAAATGCTGCTTTGTGGATGCTAAATGCTGGCACAGGGCAGCACAGAGTGTGATCCTGCTGGGGAGGTGCTCAGGACCACAGGAGTTTGTGTGCTCCGAGTGTGTGCCAAGGGGGAAGCCCTGCTCCTCCCTCCTGGCACAGGGCAGGGCTTTGGCCATCCCTGGGCTGCAGGGTGCTGATGCTGGGGCTCTGTCCTGCCTGCTTCAGGCTTGCCATCTCTCTTTGTCTTCGCTTTGTGCAAACAAGTGCACAGGTCTTGGTTGGGTCCTGCTGTCAGACATCCCTAAAACCTTAACAAAGGTTGCAGTGAGAAAACACTGCCCCTCGGCTGCTTTTTATCCAGGAGTGAGGAGTTTTCGCTTCAGTGTGACCACCTCCGCCTGCTCCGGGTGTGCCTAGAGCTAACCATGCTTCATTTTTCACACTGAGCTGTTCATTACTCAGTTTCTTCACCCCTGAGCCAGGCAGCAATGTCAGCTGCATTTAAAACAAGGGCAAGCAGGGGCTGCCCATTGTCCCCCGCATCCCAGGTGGGTCCATCCTGACATCCTGGTGGTGCTGTTGGTGCTTTTCGGGGGATGCTGGGTGTCGAAGCCCATCCCTATGTAGGAACCTGGAATGAGTTCAGCACCATAGTGAGAACAGCATGGGGCCAGCAGGAAGTGAGAGGCATGGGCTGCCTGCAGGCTGCCCTGCTGGGAATTAAGGAAGAGGTTAAAGTGTTTGCAGCTGCTCCCTGGTACCCCCCTGCCCCAGGCACATCTCAGCACAACTTCCCAAGGTGGGGGAGAGCACTCCCAAGAAGGAGCTTTGCAGAGCAGCAGTGCCTTTAGGGGCTGTTGGTGCCCCTGAAGAGCAGTGCAGGGAGCCCTCAGGGCTCTGTATGCGTGTGCTGTCCCTGTGGCTGCAGGAGGCCTGGGCAGGGCCTTGGGGGCGTCCTGCAAGCATGCTGCTGTGGGGGACTGAATGCACTGAATGGAGACATGAGGTTTGCTCCTGTGGATGTGTGTGATACACAGAGATGCTTCTTTTTTTTTTTTCTCCCTTTTCTTCCCCCAATGCCTCTCGCAG
Seq C2 exon
GGGAGCACAAATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012339:ENSGALT00000020162:11
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:
PF028419=GBP_C=PD(53.5=47.9),PF096855=Tic20=WD(100=55.6)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg19)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]