GgaINT0126698 @ galGal3
Intron Retention
Gene
ENSGALG00000001073 | F1NVM8_CHICK
Description
NA
Coordinates
chr17:10176513-10178780:-
Coord C1 exon
chr17:10178659-10178780
Coord A exon
chr17:10176666-10178658
Coord C2 exon
chr17:10176513-10176665
Length
1993 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
CTGATCATATTCTCTTTCAGACA
3' ss Score
9.9
Exon sequences
Seq C1 exon
ATTCAGTGAAGAGGGCATGGAGGTGATGGAGCGGTTGATCTACCTCTTTCGCAAATTCAACCAGTTGAAGGTCAGCAACGAGGAGTACGCATGCATGAAAGCCATTAACTTCCTAAATCAAG
Seq A exon
GTGAGTCAGTGGAGAGAAGGAATCAGTCCAGCTGGAGGAAGGATCTGAAACCCAGGGATTGATGTGGGCTCTGCAGACACCTGTGTGAGGAAGTTCTGGAAGTGAAGGAATGCTTTTGCTTAGTTGCTTTTCTTGCCCTTAAATGTAGACACCAAGGACAGTGCTTGTGCCATACATACAGTTGGAACGTATCTAAAATGTTCGTATCGGAGTAAGAGTATAACAGAGACTGGTAACATTTGTCTGGAGAACATTTGGGTGACTGATTTCTTAACAGCTGCTGATGAACTTTTCACCAGTCATCTGAAAGTTATATTGGTGTAGATGGCAGTTTAGGTAATTAACAATTAATTTGCGTGAATTTTTTCCATGGCAAATAACGATCTTTCACAGATTCCAAACTGAAAATGTGTTTGTTCTTCTGCCTGGGAGGGTGGCTTTGTAAAACTGGTCCTCCCTTTGTAGAGCTTTCCTGACTCTTGAAGTGATTTACCTTCAGGATTTATGTTTAGGTCACCTAGTTGGCTTCCTGCTATTTAGAAACTTCGTCAGTATATTTTCCTATGTCTAATGCTAACTCTTTAAAGTGGGAAGTATTCGGGAATGAAGTATTTATGTGCAGGCAATGAATTCTGCCTAATGAGGGATGGTATCCTTCTGTTGGTTAACCAATGTATTAGTGCCAGCAGTTCAGCCTGTTGCAAGAGCCTTGAATATCTTCAATTTAGTCAATGCAAAATGAAATGTAGATTAATTCTTCAACGTATGGGAAGATCCTGGTCAGTTCCTAACAAGTGTGGTGAACTGAAATAGTTTGGAATCAATAGGTTTCTTGTGATTCCCTTCCCAGTAGTTGGTTGTTGCCATTACACTTCTGTGGAGCCTCTTGGGACACTTCTTTATGTTGTGTGTGCATAAATGAAGAAAAGTATGGAGAGGAAAACGCTTAATAGATGGTGTTCAGCTGTAATTTTGGAAACAAATGTCCCCAGAGTCTTTCATGCTGTGAAAGATAGTCGCAGCCTGTGAAATGTGCTGAAAGCTCCCTCCTCCCCCACTCATTTTCACCAGGCGATAGTGCTGACGCTTCAATGTGTGCCCGGGCTCAGATTCCGGTTTGCTTCCCTGGGCAGTTTCCTGACACTTCTTTAGCTGTCTCCATTGTTTTCTAAAATGTATTTTCATTAACTTCCTGTCTTCTTTTATTTTTAGTTGAAGTTTGCAATTTTTTATGTGAAATACCTGAAAATTATTTTTAAAAGTCAGCTTTTGGGCAGCAGATAAATGCCTCTTCCGTCAGGCTGTCCCACAGGACTGAGCCCGCAGTGAGGGTTGTGTAGTTTCCGTATTCTGACCACATTGGATCCCCCCCAGGACACCCAGCAAATGTCACTGATCGTGCTGAAAGGTGGCAGTGGGACTTCCTGCCACGCTGATGGTTTGGGAGCATCCATTTTCCTTTGCGTTCATTGTCTGACGTGGGTAAAGCTGAATTTTAAAACAAGAACTTGACAAGTGTGTAAAGCTCGTTAGACATAATTCATAAGCAGATGGGAAGAAATATGATGATACCTTGGATTATGGTCAAATGCTTTCCTCAGCCAAGATGATACAGCCAATATCACCGTGTTTCTGTCTGAGGAAGTATTGCATTGGATCCGCTGTGAGGACAAAACCTTGACACGCAGCTGCTTTACAGAAGCCAGGCAGGGATTTAAGGTTGCTGTTATCTGCAAGGGAGTGCCCTGAGCGCTGAAGACGAGCAGGTTAGGGCTTCAGCTCTTCACATCCACATCTTTGTGGAAGGAGGCCTTGTGTGCAGGCACAGCGGGCACGAAGTCTGTGCGTACCTGGGCACTCAGTCAGCCTCCAAAACAGCGACCCAGCTTAGAGTTCTAGAAATCAGTCTGTCCTTCCTGAAGAAGTATGGATCTGCTGCTGTTCTCAGTTGTTTTCCTTATGTTTTCATCACTCTGATCATATTCTCTTTCAG
Seq C2 exon
ACATTAGGGGTTTAACCAATGCATCCCAACTGGAGCAGCTGAATAAGCGGTACTGGTATGTTTGCCAGGACTTCACAGAGTACAAATACCCACACCAGCCAAACCGTTTTCCGGATTTAATGATGTGTTTGCCGGAGATACGATATATTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001073:ENSGALT00000001607:6
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:
PF0010425=Hormone_recep=FE(20.4=100)
A:
NA
C2:
PF0010425=Hormone_recep=FE(25.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCAGTGAAGAGGGCATGGAGG
R:
TGCAATATATCGTATCTCCGGCA
Band lengths:
272-2265
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]