GgaINT0074477 @ galGal3
Intron Retention
Gene
ENSGALG00000015599 | F1NDR6_CHICK
Description
NA
Coordinates
chr4:84410097-84413010:-
Coord C1 exon
chr4:84412762-84413010
Coord A exon
chr4:84411624-84412761
Coord C2 exon
chr4:84410097-84411623
Length
1138 bp
Sequences
Splice sites
5' ss Seq
CGGGTACAA
5' ss Score
2.62
3' ss Seq
GCTGTGTTTTGCCATTGCAGGCA
3' ss Score
8.58
Exon sequences
Seq C1 exon
TCCGCCGCCACTCCTGCGGTTAGGCTCAGCGCGCCATGGTGCAGCTCGGGGGAGGCCGCGGAGCCCCACCGCCTCTCCTGGCCCCACCGTCGGCCTTCAGCATCGACAGCATCCTGCAGCCCGGTCCCCGCTGCCAGGCCCGGGAGCAGGGGAGGGCCCGCTGCGCGCTGCCGGAGGACGAGGAGGAGGAGGAGGAGGAAGAAGAGGGGCCTGCGGAGGAACACCCCACTAAAGGCTCCACCGACTCGG
Seq A exon
GTACAAAGCAGGCAGATCCGCACGTCCGGTCGCAGCCAGGCACCCACCCAGGACGGGGGTTTAGCCTCGGGCCTCCAAACGGCACCGCGCCCAGGAGGTTCGGGTGGGGCGGGCACACCCACACCCGCAGGCTTCATTCCCCACAGCAGTTCGAGGAAGCGAGGCTCCGTGGGAGGACATGAACCCCTCTCGAAACCACCTGCTGCTAGAGGCCACTCCCGGCCTCTTTGGTCGTTTTTCCCGTGTCCTGGAGCCCCTTCCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCTCGTCTCCCTCCTCCCCACGGAGGCTGGAGGTGGGAGGTGGTGGGCAGTCCCCGGCCTCGGCCCCTCTCCACGGCCGTGGATGCGTGCATGCGGGGCGGCGGCGGCAGGGTGGGGGGCTGACGCTGTGTTTTGCCATTGCAG
Seq C2 exon
GCAGCGAGAGGCTGCTGGCGGAAGGGCCGCGCCGCGCGGATGCCGAGGCCGAAGGCGCGGTTTCACCGCTCTCCACGGAGAGGTTCCGCGGATGCCGACAGCCGTCGCTGCGGGATACCGGGGGCTGCGGTAGAGAGAGCGGCAGGTGTTCAGCGGCGGGAGGCAAGAAGAAGACGCGGACCATCTTCTCCAAGAGCCAGGTCTTCCAGCTGGAGTCCACCTTCGACGTGAAGCGCTACCTGAGCAGCGCCGAGCGGGCCGGTCTGGCCGCTGCGCTGCACCTCACCGAGACGCAGGTGAAGATCTGGTTCCAGAACCGCCGCAACAAGCTCAAGAGACAGCTGTCGGCTGAACCCGAGGGTCCGAGCCAAGCGGAACCCCCAGGGGAGCCCCCTCCGCCTCCCGCCGCCTCTTTCTCCTTCCCGGCCCTATACAAGGACAGCGCCCTGCTCAGCCGCTGCCTGCTGCCACTCCCCTTCCCTCTGTTCTACCCGGGCAGCGCCATCCCCTACCTCTGCCTTCCCGGTCCGGTCAAGCACTTCAGCCTGCTGGACGGGGACGTATAGCGTCTCACCTCGGCCCCCGCCCTGTCTCTTGCAGGGGGCCGATGGTCCCTGTGGCACAGCCGTACCACCATCAGCTTTCGCCCCGACACGCGGCAGCCGCTCCCAGGCCCGGGGTCCCCCACACGCTGCCGTGTGCCGTCGTGTCAGAGGAGCTTCAACGAGCGCTGCACTCTGCTCGAGACGGAGAAGAACGGAGCTGCCAAAGAAACCGGGATGCGCTGTGTCTCCTTTCCCTCCACAGCCTTTCCGTGGCCGCAGTTTAGGAAAGATGATATTCTGCCTCAGTCCACGGGAATGGTGCCATCGCGGCTGCCCCCGCACCGTACCGCCACCCGAGAGCGTTGGGTACAGCCCCATCCACTCCGTACGCTCCTCTATCTCACATTCTCCGCCTTTAGTACACCTTCAATTAACGCTTCCCCATCTCTGACACTATCAAAATGCAGACACCTCTCTAAATCTCTGTAGCTTCTCTGAATTTTGAATTTTCGAACCAAACAAGTCCTCTGTCACACTTTGTGCTAACCGGTTCCCAAATCAGGGCCCGTCTGATGTTTGGCGCACAAGTTACTCATGCTCCTTACGCTAACCCCGCCCCCGGTTGCTCAGGGGATTATTTTATCTGCTGCCCTACTGTAACGAAGTGCTTTCTTTTGTTTTTTGTTTTAATCCCCCTTAAATCTCCAACCACATTTGTCTTCTTTTGGTTTCCGAGTTCACACGCTTTATATTACAAATTGGGAAATAAAACTTTTCTATCAGAAACCCGAGCTGCATGCCTGTTCCGTACAGCCGCTCCAGGGCAGTGTCCAAAGAAAGACGTTTCCTAGAGTGCATCGACGGGTGTTTGTTTTAAAAATAAAGGTTGAACGTGCAATCGTGGTGTGGCGAAATTCAGAAGTGCGTGCTAAAATGGGAGACTTGTTGAGTTTTCCGGAGGGAAAAAAAAAATAATAAAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015599:ENSGALT00000025152:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.441
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0004624=Homeobox=WD(100=30.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGAACACCCCACTAAAGGCT
R:
GGAACCAGATCTTCACCTGCG
Band lengths:
345-1483
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]