GgaINT0034996 @ galGal3
Intron Retention
Gene
ENSGALG00000005752 | F1N8D7_CHICK
Description
NA
Coordinates
chr8:14428126-14429952:+
Coord C1 exon
chr8:14428126-14428260
Coord A exon
chr8:14428261-14429848
Coord C2 exon
chr8:14429849-14429952
Length
1588 bp
Sequences
Splice sites
5' ss Seq
CTCGTAAGT
5' ss Score
9.63
3' ss Seq
TCTTAACATTTACGTTCCAGGAT
3' ss Score
7.49
Exon sequences
Seq C1 exon
GTTGCTGAATGGGGCATCCAGAAGTTGGGACTTCCTATGTATGCTGACCAGCTGGCTGGTACCTACAGTGGTGGCAACAAGCGCAAGCTTTCCACTGCCATTGCACTGATAGGCTGCCCTCCACTCATCTTGCTC
Seq A exon
GTAAGTGCCCCAGTAGTGTAGCTCTGTGATACTTCAGTATGACATCTCATAAAACTACATGCTGGAGGGCTACAAGGATGTTTATAATAGTCCTTGCAAGCTCCTTTCTGCTTCAACTTATGCCTACTTCAGTGTAGTCTTGAGTTCTTTAATATTAGGAGTAGTCTAAAATGCATAACTATGTTTCAGATGGAACCTAAGTTATTATAAAAGAAAGATTTTCAATAAGGAAAGGTTTGGTATTTAAATATACAATTCAGAAAAATCTGAGTTTAAATCCACGATTGGTTTCAGCCTGTCTTTTCTTGCCAGTGTAACCAATCATGTAAATGATGATTGGTTCAGCCTGGAGAAGGCTCTGGGGAGACGTCATTGTGGCCTTCCACTGCTAAAGGGAGCTTATAAACAGGAGAGAGAACAACTTTTTACGAGGTCCGATAGTGACAGGAATTGTTTTAAAGTAAAAGAGGGGAGAGTTAGGTTAGATGTTAGGAGGAGATCTTTTACTCAGGGGGTGTTGAAGCACTGGCACATGTTACCCAGAAAAGTTGTGGATGCCCCACCACTGGCAGTCTTCAATGTCAGGTAGAAAGGGGCCCTGGGCAGCCTTGTCTGGTGGGTGGCAACCCTACATGTGGCAGAGGTGATGGAACTGCATGATCTTTAAGATCCCTTCCAACCCAAGCCATTCTATGCTTCTATGATCTTACTACATATACCCTGCTGCTTTTTTCCAGCAGAACAGAGGAAGATAGCTACATTTTCGCAACCTTTATTATCTTTGAAATGAACTACACAAATTTAGAATAAACTATACAAAAGGTAAAATGTAGTTCTCATTAAGTAATATGAATTATCATAATTGTATTTCTCAACAGTAATTCTAAATGCAATTGCTACAAAAATTCTTTAAAATACACTGTAGTGTCTTCATTCATAGGCTATTAGGAAACGTGTTAATAACTTCTTAATAGCATGGTAACTTGTGCTATTTAATATGCCTTTTAAATATATTCTCACTTTTTTAGCTTCTGTGTTAACTGATTTATACAGGACTAGATCATCTGCTGATCTAAGTCAGGGTAGCTTTGCTAGCTTCTTGGGTTGCAGAATGTCCTGTGTGTTTCTGTAAGAAAGGTTACTTTTAAAGCCACACTTGACACAGTTTGATGTGATTAATATCATGAATCTCCTTCCATTTATTTTTACTTCAGGTTCTAAATCTTTTGGTAATAGGGTGTCACAAAGGTTTACATTTTTGACTGCTAAGACCTTGGGCGTAGGTCTGCCTTTGTTATAACAGTCAGTGCATTCCTTTCCCTGTTGCTGGGCCCTATACAGACAGCACTGTATTCTTACCTTAGATTTCTTATATTTGTTTCCTTACTGCTTTGTGCTAAGAAGCACATTACTGCCAATTCACTTATATACTTGTCAAGGTGTGCTTGTGCATACTCAAGGCACAGATTTCAGTAGGGAAGCAGTGATAAGCTAGAACCCAAATGTTGGTTCTAATGATTTCCTTTCTAAATGGTTTCATTTTTTTTCTGCTTCTCTGAATCTGGCTGTCTTAACATTTACGTTCCAG
Seq C2 exon
GATGAACCAACTACTGGAATGGACCCTCAGTCCCGGCGCCTCCTATGGGATTCTATTGTGAGCGTGCTCAGAGATGGACGAGCTGTAGTTCTAACTTCACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005752:ENSGALT00000009238:46
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:
PF0000522=ABC_tran=FE(30.3=100)
A:
NA
C2:
PF0000522=ABC_tran=PD(2.8=11.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTGCTGAATGGGGCATCC
R:
TGTGTGAAGTTAGAACTACAGCTCG
Band lengths:
238-1826
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]