GgaINT0097544 @ galGal3
Intron Retention
Gene
ENSGALG00000011055 | F1NMG4_CHICK
Description
NA
Coordinates
chr2:32543955-32546257:-
Coord C1 exon
chr2:32545595-32546257
Coord A exon
chr2:32545106-32545594
Coord C2 exon
chr2:32543955-32545105
Length
489 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGT
5' ss Score
9.89
3' ss Seq
GTCCGTGGGCGCACGTTCAGTCA
3' ss Score
0.56
Exon sequences
Seq C1 exon
GGCCTCGCCGAGCCCAGAAAAACGACAACGCGAGAAAAATTAGTATTTTTGCACTTCACAAATTAATGACCATGAGTTCGTTTTTGATAAACTCCAACTACATCGAGCCCAAATTCCCTCCCTGCGAGGAGTACACGCAGCACAGCGGCAGCGCCGGCAGCTCCGCCAGCTACCACCCGCACCACCCGCACCCGCACGCCCCACCACCGCCGCCGCCGCCGCCGCCGCCGCACCTGCACGCCGCGCACCCGGGCCCCGCTCTGCCCGAGTACTTCCCGCGGCCCCGCCGGGAACCCGGCTACCAGGCTCCCGCCGCGCCGCCGGGGCCGCCGGGGCCGCCTCCCGAGGCGCTGTACCCGGCGCAGGCACCCTCCTACCCCCAGGCTCCCTACAGCTACAGCAGCGCCGGCAGCGCCGCCCCGGGCCCCGAGCAGCCGCCCCCGGGGGCCTTTCCGCCGCCGCCGCCGCCGGCCAAGGGCCACCCCGGGCCGGCCCAGCCCCTGTTCCCCGGCCATGCCCTGCAGGGCCGTTGGGAAGGGGCCCCCCCCCCCGGGGCCGGCCCCGGGCCGGGTTGGGGGTTGCTGCCCGACAAGAGCCTGCCCGGGCTGAAGGGGAAGGAGCCGGTGGTGTACCCCTGGATGAAGAAAATCCACGTGAGCACGG
Seq A exon
GTGAGTGGCCCGGGGCAGGGGGAGGCCGGGATGGGCCTGCGAGGAGGGAAGGGGGGGAGGGTGCTGCCGGGGCCGGGATGGGTCGGGGGGTGTGTGGCTTTTTTTTTTTCCTCCCTCCGGGTTTCCTTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAGTGAGAAACCTTTTGTATCCGGGGTCCTTTATCAAAAGATTTACGAGACGCCAAACTGTTAGGGCAGTAATTATAGCCCCCATAAATTTAATTGCCCTTCAGTGGCTCTGGGCCATGTGTCTTTGAAGCTTTTCTTCTAACCCAAATGCCCATCACCATTTTTTATTGCTCCTCGATTGTCCCCGCTGCCGATAGGCTGCGAAACAATTTTTCTTGCCGTTATGTATCTGATTTGAACCCGGTGTCAAGTTATCCTCTAATGACGATGTTCCATCGCTCCCTCCCTTCTCTCCTCTCCGCGTGTCCGTGGGCGCACGTTCAG
Seq C2 exon
TCAACCCCAACTACAGCGGCGGGGAGCCCAAGCGGTCCCGCACCGCCTACACCCGACAGCAGGTCCTGGAGCTGGAGAAGGAGTTCCACTTCAACCGCTACCTGACCAGGAGGCGACGCATCGAGATCGCGCACACCCTGTGCCTCTCCGAGCGCCAGGTCAAGATCTGGTTCCAGAACCGGCGCATGAAGTGGAAGAAGGACCACAAGCTGCCCAACACCAAGATGCGCTCCTCCAACCAGCCCTCGCTCGGCCAGCAGCAGGCCAAGGCACAGACACAGGGCCACCCCCGCCCGCTCGACGGGGCTGCGCCCAACGCGGCCGCGCTATAAGGGGCTCGTTGTTCTTTTTTTTTTTAATATATAGATCTCTATTTACCTATCTATTGGGGTTGTGCGGCCGCCCGCGCTGGCGGCTGGCCCTTGGGACCACGCAACTGTGTAAGACAAAGCAGGAGCAGGGAAGGAAGGACGAGACGTGCCCAGGGACGGGCACACGTTGAAACCAAAACCCGGACGATTGCCTACATTGTATATAGATAATGGTTCCATGCCCGTCATTTTTTTTCTATTTATGGAAACCCTCTCTTGCCCTCGCTGTAAGAGTGCTGGATGCTGTCACGGACGAATTCTCCGTACCTATGACGGACCCTTTTTTTTTGTTGTTGTTGTTGTCGTTGTTTTTAAACAGAGAACACTTTACAAACTAAAAGACGGTTCAAACAAAGCCAGGAGCTCGGGGGGACGCCCGGTCGAGGCGGTGACTCGAGTGGCGTGGGCCGAGCGTGGCCGTGAGGGGCACACACGGACCCACGAGGCACAGAGCGGACACGTTCACCTCGGGTTAAAAACTCATGGGAAGCGTCCCCTCACGCCGTGTTGGTGTACCGGCCGTAACTTAGCTGGGTTTCGGTGTAGCCCCGCAGTAGCTGTGATATATGAGTTTTTTTCCTCCACATTCCCCATCGCATTTATTTAAAAAGAAAAGAATAATAATAATAACGCTATTAAAGGCTGTGGCTGTTTTCATATTTGGCACCGTCTAAATCGTTTGGGTCCATGTACAATTTGTGGATTTTTTGGTGTAATGTATACAGTGCCAGATGCTGGTAATAAAGATTATTCTGTACAAAAAGAATTAAACGCTTGAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011055:ENSGALT00000018006:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.820 A=NA C2=0.600
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0004624=Homeobox=WD(100=51.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAGGCTCCCTACAGCTACAG
R:
AGCTCCAGGACCTGCTGTC
Band lengths:
357-846
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]