GgaINT0039179 @ galGal3
Intron Retention
Gene
ENSGALG00000011413 | E1BVV4_CHICK
Description
NA
Coordinates
chr8:27490085-27491935:-
Coord C1 exon
chr8:27491770-27491935
Coord A exon
chr8:27490246-27491769
Coord C2 exon
chr8:27490085-27490245
Length
1524 bp
Sequences
Splice sites
5' ss Seq
AGGGTAGGC
5' ss Score
7.26
3' ss Seq
TTTCATTTTGTCCCCCTCAGGGC
3' ss Score
11.31
Exon sequences
Seq C1 exon
CTTTTTTCTGCCTGTTTTTCTACAGGTCTCATATCCTCAAATGGTCACATATGGAGGCAACAGAGAAAGTTTGTTTCAGCAACGCTGAAAAGCATTGCGGTCAGTTTTGAGTCAAAAGTGCAAGAGGAGAGCCGGTACCTCGTGGAGGCGATGGAGGAAGAGAAGG
Seq A exon
GTAGGCGGCCCATGGACAGCACTGTGCCCAAAGCTTTCAGCCAGCCCCTTGCCAGATGAATTCACACCAGTGTGACTCCTAATATGCAGGGCAACTCCGCAGTAGCACAAATCTCTATCTTAGACTTCCAGATTGTGCCTTTTAGGTCTGCCATTTCAATTCTTCCTTACTAATATTAAACAAATATATACTAAGTGCTTACTAGAATCGGTATGTTTTATGTGTCTAAGAAAGCCCTTTCTATAGCCTACAAAGGCAGAAATGCAGCTCTCATGATATCAAGCACGTTCGCTCGGAGGCTCAGTTAACCTCTGCTTGTCCTTGGTTTTGCAAAGTATTTTAAAACTTGTTTAGTCAGGCTTTCCTTTTGTATCATGCACAGATGAAGCTTGTGCTTTGCTCTTTTATGGTCAGGCTTTTAAGAAGTGCCAGAGAGATATTAGTAAGAATAATTTGTATGTTGGTATATGGGTGATGTTGCACTTCAGCTTTAAATAGAAGCAGATGGGGTTTAGCTAATTCTATGGAGCTATATATAGTAAACAAGAAAGATCTAAATAGGAATTGTGAAATTATATACTGAACTTGCTCCATTTTAATTGCTGTTGCTCTGAACAGGCCAAATACTTCATGTTGCCAATTGATTATAGTCCTTTATAGTCCTAATCAATAAACTAATTAAGCTGCAGTTTTGGGCCTTTCTTCCCATTAGTAATGACAAATAGTGATCTTGTCCATCACTCTGGTATCTGAGCACCAGCCCAGCTTAATTACTTTCTCAGAGAGTGGAGAGATGAGCAGTGCTGTGCATGGTGCCTTGCATCTCAACACGATACTCCCCACCGCGCCTGCACAGCTCAGGGCCATGCTGGACTCATTACAGATATTACTCTCTCCTGTCACAGCAAGTAGTGATCTGGGCTTTCTAAATGTGCCCTGGGAGATGGTGACCTCTGCTCGATACCTCTCCTGAGGGAAGCAGATGTGATGAGCATCATGCCACGCTTTGCTCCTGTAGGAGCCGATGTGCATCATGTCTGTTGGCCACGTGAGCTATTGCTGGATTTTCCTGCTTGAATTCTTTGTGGTGCACAGACAAAGGCCAGTACAATGACATGTTTGCAATGTGATTGGTCTTAAGTTTCCTGCCCCAGGCAAAGCTCTGAATGGAACTTCTCTTGCTGTTTAAGATAGAAACTAGTGACCAGTTGGAGCAAACAAGCCCAACAGCCATAACTGCTTGTTTCCACTGGGAAATGGCTCAGATCCTACTTCAGAAGCTTGGTATTAACACTGGGGTGTGCCACAGCCTAGATGGAAGGGGATGTCCTCGGAGAAAGAACACTGGGGATCACAGCACACAGCTTTTAGAGGTGGTGGGGACCCCAAGACACAGAGTCTTGCATCAGCATGAGTAGGTAGTAGGTGAGGCCTTACCCCATTTTCATACCTGTTGATCTGGTACAGAATGTTATATCCGAGATTAAAAACCAAACCTCACAGCTTTCATTTTGTCCCCCTCAG
Seq C2 exon
GGCAACCGTTTGACCCTCATTACAAAATTAATAGCGCTGTTTCGAACATTATCTGTTCTATAACTTTTGGGAACCGCTTCAACTACCATGACAGCAACTTCCAGGAATTACTGCACTTGCTTGCAGAAACACTGCTGCTGATAGGAAGTTTCTGGGGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011413:ENSGALT00000018621:4
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:
PF0006717=p450=FE(11.9=100)
A:
NA
C2:
PF0006717=p450=FE(11.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTTTTTCTACAGGTCTCATATCCT
R:
GCCCCAGAAACTTCCTATCAGC
Band lengths:
312-1836
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]