GgaINT0124639 @ galGal3
Intron Retention
Gene
ENSGALG00000008932 | F1NV62_CHICK
Description
NA
Coordinates
chr17:1310556-1312073:-
Coord C1 exon
chr17:1311843-1312073
Coord A exon
chr17:1310820-1311842
Coord C2 exon
chr17:1310556-1310819
Length
1023 bp
Sequences
Splice sites
5' ss Seq
CAGGTATTG
5' ss Score
8.35
3' ss Seq
GGCTCTCTCTCTCTCAACAGGAC
3' ss Score
13.38
Exon sequences
Seq C1 exon
TTTTCCTTCGCAGGAAAATGGGAACATCCACAAAACACTGAAGTCCTGGGAGCTCTGGACCTTGGAGGAGCCTCAACACAAATTACCTTCCAGCCTGGAGTCACCATTGAAGACAAAAACACATCTGTACTCTTCAGGCTGTATGGCACCAACTACTCACTCTACACCCACAGCTACCTGTGCTATGGGCAGATACAGGCCTCGAAGAGGCTGATGGCAGCTCTCCACCAG
Seq A exon
GTATTGCAGCCACTGGGCGGTAGAATCTGCTCAACCATTTCCCATTGCCACGAAAAATGTCTTCCAGAAAAACTGCACGTATGTAGGAAAAGTTTAAGGGAACCGGGGAGTTCCACAAATTCAAGAACCTGAGAAAGGCTTATATTTATGTACTGGACTAAAAAAAATTATCATTTGAGTGGAAGGAGGTGGTGATGTTCTGCGGGGCACTCTCCTCCTCAGGTTTTGTCATATAACAGCTGGAAACAGTGGTTTCCAGGTATCAGCTTCATTGCATCTCAAGTTGCTTAAAAGGCCATCAGGTCCTTCCCTGGACAGCAGATGCAGCATCCAGTTAGCAGAGGACACAAACTCCAGTCAGCTGCAGACATGATCTGGCATCTCCTGGCCAGGATTATCGAGTCTCCAAATTGTGTGCCCCTATGTAAGAGAGCAGATTGGGTGCGGAGCTGAGGCTGCGCACAGCTCAGTGCAGAGATTATAGCTGTTAATGGGAGTTATATTCACCTGCCCCTTTGATTTTTTTCTCAAAGTGAGGATTCCAAACACCCTCTCCTGCACACTGCTCTACCAGCAGTCAGCATTCTCCCATCTCAGCTCAGATGGGGAGGTGAGATGCCCAATGCTGTGGGAGATGGAGATAGTTGAGGAGTGTGGAGATAGAATGCATCTTCAGTCCTTTCTGGGTTAGGACCTGCAAGATGTGGTGGGGACAAACCAGGTGCCAAAAACAACTTCTCCACACAGACAGAGAGGCACTGCCCATAGGAGTGAGATTGCAGCCTTAAAGGGAGGCAGTGGCACCACCACCCCAGCTCTGCTCAACAGCAGGGCCAGTGGCAGGACTAACAAAATGCATGGGCAGGTTAAAGTCATCCAAAGGTTGGATCCTGCTTCTGCTCAAATCCTCCTGGGATCGAGATCCTGCTTTCTGGGAGGGTGTAAGCACAGGCTGAGCAGTGGGGTAGGGTCTCAGTGGCATCCCACATCAAGCACTGGTAATGGCTCTCTCTCTCTCAACAG
Seq C2 exon
GACGGCTCGTATGTCCAGAATATATCACACCCCTGCTACCCCAAGGGATACCAGGAGAACATCACCATAGCAGAGATCTACGACAGTCCCTGTGTCCCCACCCCAAGCATGCTCAGCCCTGCACAGATCCTCACAGTAACAGGGACAGGGAGCCCAGCGGCGTGCCGCACTGCCATCCTGAAGCTCTTCAACTTCACCTGTGGGGCCAACAGGACGTGTGGCTTCGACGGGGTCTATCAGCCGCCCGTGCGGGGACAGTTCTTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008932:ENSGALT00000014518:4
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:
PF0115012=GDA1_CD39=FE(17.8=100)
A:
NA
C2:
PF0115012=GDA1_CD39=FE(20.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACACTGAAGTCCTGGGAGCT
R:
GCTCCCTGTCCCTGTTACTGT
Band lengths:
351-1374
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]