GgaINT0046955 @ galGal3
Intron Retention
Gene
ENSGALG00000011009 | F1NN72_CHICK
Description
NA
Coordinates
chr7:21312629-21313250:-
Coord C1 exon
chr7:21313130-21313250
Coord A exon
chr7:21312784-21313129
Coord C2 exon
chr7:21312629-21312783
Length
346 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGA
5' ss Score
9.45
3' ss Seq
CAATTTATTATCACACTTAGGCT
3' ss Score
4.08
Exon sequences
Seq C1 exon
AAATTAAATGCCTCCAGTTCATCAGAAGGCAGCACAGTTGATATTGGACTACCTCCAGAAGGGGAACAGCCAGAAGTAGAACCTGAAGAATCTCTGGAGCCTGAGGCTTGTTTCACAGAAG
Seq A exon
GTAGGAAAAGAAAATATACTCACATCATGAGACCTAATTTTGTTGGTATGGGCTGGGTTCTATTCTTAGTTGAAATCAATAAGCTGCCTTGTGATTACAGTTATATTTTCTTTTTGTATGAGTATCTCCTTCATAGGTGATGTTGTGGTGCTCTCTTTATCCTTGATAGATATTATAAAAGTTACAAAGCTTCCATTTCAAATATTGAAACTAAGGCCCTCAAATATTCAGAAAGATACAGCCATCTATTGTAGTATTTCTGAAATGAGCCAAATTGCTTTGTTCATTCGTAATTCCTAATTAATATTAACCTGATACTGACATCTCAATTTATTATCACACTTAG
Seq C2 exon
GCTGTGTGCGGAGATTCAAGTGCTGTCAAGTCAGTGTAGAAGATGGGAAAGGGAAAATCTGGTGGAATCTTAGGAAAACGTGCTATAAGATTGTTGAACACAACTGGTTTGAGACCTTCATTGTCTTCATGATTCTCCTCAGCAGTGGGGCTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011009:ENSGALT00000017933:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.707 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF065128=Na_trans_assoc=FE(18.0=100)
A:
NA
C2:
PF065128=Na_trans_assoc=PD(19.8=84.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATGCCTCCAGTTCATCAGAAGG
R:
CAGAGCCCCACTGCTGAGG
Band lengths:
270-616
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]