GgaINT0117951 @ galGal3
Intron Retention
Gene
ENSGALG00000011894 | F1NJG4_CHICK
Description
NA
Coordinates
chr1:51296106-51297615:+
Coord C1 exon
chr1:51296106-51296279
Coord A exon
chr1:51296280-51297473
Coord C2 exon
chr1:51297474-51297615
Length
1194 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGG
5' ss Score
8.76
3' ss Seq
CACTTGTTTGCTCTCCGCAGGGT
3' ss Score
10.17
Exon sequences
Seq C1 exon
CTTCTTAATGTGGCACCTGTTTTGTTGCGCATCCCTGGACTGCCACAGAAGATCTTTCCGTGCCAAAAGGCATACGTAGACTTCACACAAATGCTCATAGATAAGCACAAGGAGACCTGGAACCCTGCTTACATCCGAGACTTCACTGATGCATTTTTAAAGGAAATGGCAAAG
Seq A exon
GTAGGGAGAGAACAGCAGAACCTCAGAGTCCTGGGGCAGTTCCTCTACTTCTTTAAACTTGTTGATAGAAGCTGGCTTCGCTTATAAAGTTCTATAAAGACTGTTATGAATTTCCTACCTCTTCATTCCATGTCATACTTTAGAAATGAGGTGTTCAGATCTTCATGCTGTGCCCTCCTTGATTATCCTCAGAGATCATATAATCCACTGTTCCCATCCCCATCTTCCACCCTTTTTCCTCTCAGTGTCTGGCAGCTCTCTTTTCAGCCTACATCACTTTGCAGGCCTTTAAGGGGTGGATCTGAGCCTGACCACATCCCCTCTTGTCACATCTCTCTGCTGCTTACCTAAGGTCCCCTAAAAAGCCAGACTGAAAAATCCCTCTGCTGGTGCTAACTTTGGTCAGGCCAGTCCCTCTGCTTCCTTGCCAGAGATTTTTTGTTTGAATCAAAGCTGAGTCAGAGGTACCTCATTAACTGCTATCCATAGTAAGACAGCATCAAAATATGCAGAATAAGTTAGCAGACACTAGTCCCTAGGAAAGAAAAGTATAAAAGGGATTAGAAAAGACAAGCAGATGAACTCATACAGAGAGCTTGTCAGATCTCATATGCTAGCTCAAATCTGAGCTCAAATAGCATTTGGATGAGAGACCAGTTTTGCGGAGATTGGTGTCGCAGATGTAATAGGTAGCAATGATACCCTGAGACCTTTTTTTTTTTCCCCCCCCACAATTGCAACAAAATACCAGGGCAAAACAGTGAGAATCTGTAATGCATAGATAGATAGCCCCCTCAAAATACTGCTGATTTGAATTTGCCACATCAGTGCGGCCTCCTCGCTGCTGTGTGGGTTTTCAGATCTGTTCAGTCTGTGTAGCAGAGTTGCACCTCCTCTGGGGGAGGATGTCACAGTATGTGGCAGTGGCCTGCTGAGTTGAGAGCATAAGGCATTCACTATGAAAGCAGGTGTAACTTTCACCTTTCACACTGGCATACAGGAGTATAGTGGTAACGGCATGATTTAAGCACATCAGTCATACACAGACCACAGCTTGTGTTGTACTCTACTCTGCCAATGAACTTCCTGGTCGGCAAAAATGGATCTACTGCTTCTCAGTATTTCTCTGAAAGAAAGTCTTCTCACTCAAGAAAGCGTCTTTGCTCCTGTCACACACTTGTTTGCTCTCCGCAG
Seq C2 exon
GGTAAGGAGGCTGAAGAGAATGGTTTCAATAAAAGCAACCTTACTCTGGTGACCGCAGACTTACTTGTAGCTGGTTCTGAGACCACCGCCACCACCCTCCGATGGGCGTTCCTGTTCATGCTTTTGTACCCAGAAATACAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011894:ENSGALT00000019412:5
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:
PF0006717=p450=FE(12.4=100)
A:
NA
C2:
PF0006717=p450=FE(10.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATGTGGCACCTGTTTTGTTGC
R:
TTTGTATTTCTGGGTACAAAAGCA
Band lengths:
310-1504
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]