GgaINT1009427 @ galGal4
Intron Retention
Gene
ENSGALG00000009293 | CHN1
Description
N-chimaerin [Source:RefSeq peptide;Acc:NP_001012970]
Coordinates
chr7:16294252-16295208:+
Coord C1 exon
chr7:16294252-16294425
Coord A exon
chr7:16294426-16295130
Coord C2 exon
chr7:16295131-16295208
Length
705 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGG
5' ss Score
10.28
3' ss Seq
TGTTGGAATGTTCCCTGCAGGTC
3' ss Score
9.02
Exon sequences
Seq C1 exon
ATTGTGGTTTAAATGTGCACAAGCAGTGTTCCAAGATGGTCCCAAATGACTGCAAGCCAGACCTGAAGCACGTCAAAAAAGTGTACAGCTGTGACCTTACCACACTAGTCAAAGCTCACTTCACAAAAAGACCCATGGTGGTAGACATGTGCATTAGGGAGATTGAATCCCGAG
Seq A exon
GTAAGGCGTAGTTAATGGGCTCTCGTTGCTGTACTGATAATCCGTTTAGATTGATCTGGGTCATCTGGGTTTCTGCTGAGCGTATGATTGCTCAGAACAGGTTTGCACAAGACGTTTTATGACCGCCACTTACCCTACACTGTTAATGTTATACTTGGTATTATTTCATGGTTCACACGCATCTGTAATTTTATAGATTTTGCTAGAACCTGCTTAATGGACAATTACTACTTGATTGTTACATATTGGCACCAGTCTTTCCAGTAATATTTTAATTAACAAATCAAGTGAATGTGCCAGAATCAAAGCCAGTGAGCGAGGATGTGTTTCCTCTTGCTAGTTCCCATAGTCCACAGATATCCTTTTGTAGAATTAGAATATTTATTTTCACTCTTAAATGATGACAGAACATCTCATATGCTAATGTCAGTTATTTTTAAATCTGCTGTAATTGGCTTAATATGTTTCTTCAGCTCTGAAACCATTTGCATAAACATAATTTAGTACTGATATAAGGAAGCAGCTAATGCAAGGGTCAGGGTTAGAAGGGCAGGCTAAGATTTCTTTCTGAAAGAAAAGCCTGATCAGGCCGTTAACTGGTCTGCTTTTCTTCCCTTAAATGAAGAACCTGGCAAAGATAGGACCGGGTGGAAGGAAACTGTAAAATTAATACTGATTTTAATCTTGTTGGAATGTTCCCTGCAG
Seq C2 exon
GTCTTAATTCCGAAGGACTGTACAGAGTTTCAGGATTTAGTGATCTTATTGAAGATGTCAAAATGGCATTTGACAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009293:ENSGALT00000042646:9
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:
PF0231811=FYVE_2=PD(38.9=71.2),PF0013017=C1_1=PD(37.7=33.9),PF0062022=RhoGAP=PU(9.1=23.7)
A:
NA
C2:
PF0062022=RhoGAP=FE(16.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGTGGTTTAAATGTGCACAAGC
R:
TCAAATGCCATTTTGACATCTTCA
Band lengths:
246-951
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]