GgaINT0068660 @ galGal3
Intron Retention
Gene
ENSGALG00000010532 | F1NLH1_CHICK
Description
NA
Coordinates
chr4:39317851-39319536:-
Coord C1 exon
chr4:39319045-39319536
Coord A exon
chr4:39318019-39319044
Coord C2 exon
chr4:39317851-39318018
Length
1026 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGC
5' ss Score
8.69
3' ss Seq
GTGCTTTGTCTTTTTTAAAGTGC
3' ss Score
6.24
Exon sequences
Seq C1 exon
GTATAGTTAAACTGTTAACTAAGGTTACAACTACATTTGGAACTGAAACAGAACTTTTCCTGTACTTTGCCAACATAGTAGCGCGCTGTCAGTGATTGTCCTCTCTTTAGCTTTACTCTGGACCCTTGTCAAGATTGTACTTGATTGGTTTATTCGCTACTGAGACTGTTCTGTTGGCTTGTGCTGCCACAGTTATTTTGGCTAGAAGATCATGTATTGTAATTTTTGACACATTTATGTAAACACTGAAGCACAGATAAGTGAAACTGAGATTATGCCTTCTCATACATTGTACTTCTTTTTTTTTTTTTCATCACTGTCTTTGAATAGAGAAAGTTCATGCAGAAATTGAAGCAGTTCTAGGACGTGACAAAGTTCCCTCTCTTGCCCACAAGGCTCAAATGCCCTTCACGGAGGCAACCATTATGGAAGTGCAGAGGATGACTGCAGTTGTTCCCCTTTCTATCCCACGAATGGCTTCAGAAACTGCTG
Seq A exon
GTAAGCGTTTGTGGAGACTTAATACAGTGTTTCTTTTGTGGATGAAGATCTGATGGGACATCTGGTGAGAATTTACGGAGACCTCATTTGTCTATTAAAACCTGTAGCTCAAGTTTGTAAAATGCCATTTATATAGAGAGTGGTTGAGCCTGAGATATTCGTTAAGGTAAGCAGTATGTCTGACCTGATGTCCAGAATGTCTCTCAAATTTAGAGAGATGTCTTTTCTAGGAGTCAGTTTATGTTGGCTGATGTGATTAGTGGTAGTTGGAAGCTGAGTCTACCTTTGTACCTGGAGTTGGTTTTGGCCACCTGACACAGAGGTCTGAAAAATTTACAAGTAACTGATTTGCTAAAACTTAAAAGGCGTATACAATACAAATAATAATAAATATGTTTTCTAAAGTCCTTTTGTTGGCTGTAGGTTTTCACAAACATAGCTGAGAATTGGTTTAAGTCAGTGAGAGGCAGCAGTACTTGGCTTTCAAATCCAATTCTGAATTTATTTGATTTTTTTTTTTAATGTTTTGGCTTGCAGGACAATAAGATGCAACAATCTTAAATGAGACTAGTTGTCTGAAAACCCTCTAGTGATTACAGTTCAAAACACTTCTCTTCCTTACCTCCATCATCTCTGCACAGAAGTTCTGTAACAGCAGAGAACTGGGAGGAAACTAGGTCACAACATTTCCATTCAGCAGAGTGCATTTCTAATGACTGCTGCTGTGGCATTGGCATGCTGAAGGAGGCTTTGGAGAAGAGTAACATGGCTGAGGCTTCTCAGCTGCCTTTTCCCTGCAGGGAGCTGTTGCCATAACTTGGTTTCTTTCCAGCTGCTCTGGCCTGTGTGATGGTGACCCAGCCAGGCTAGCAGAGGTCACCTTCACTTTGAGTGCCTGTTACATTTGTAACCCACAGCTACAGGTCCATATTGGTTGTTGTTGTTGTTGTTTTTTAAATAAGTCTCCTGTGTTTGCTTCTAGCAGCTTATCAGATCCCCTGTCTTTGTGCTTTGTCTTTTTTAAAG
Seq C2 exon
TGCTGCAGGGATATACTATTCCAAAGGGCAGTGTGATTGTGCCCAACTTGTGGTCGGTACACAGAGATCCTAATATTTGGGAGAACCCAGATGACTTCCAACCAACAAGATTTCTGGATGAAAATGGCCAGATAATTAAGAAAGAGGCATTCATTCCTTTTGGAATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010532:ENSGALT00000017145:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006717=p450=PU(32.5=98.2)
A:
NA
C2:
PF0006717=p450=FE(33.7=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:
TGCTGCCACAGTTATTTTGGC
R:
GCACAATCACACTGCCCTTTG
Band lengths:
353-1379
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]