GgaINT0047737 @ galGal4
Intron Retention
Gene
ENSGALG00000009293 | CHN1
Description
N-chimaerin [Source:RefSeq peptide;Acc:NP_001012970]
Coordinates
chr7:16297407-16299263:+
Coord C1 exon
chr7:16297407-16297512
Coord A exon
chr7:16297513-16298725
Coord C2 exon
chr7:16298726-16299263
Length
1213 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGT
5' ss Score
9.65
3' ss Seq
AACCCTGTCCTTTCTTGCAGAGT
3' ss Score
11.48
Exon sequences
Seq C1 exon
AAACCACCGATCCAGATGAACAGCTGGAAATTCTCCACGAGGCGCTGAAACTGCTGCCGCCTGCACACTGTGAAACACTGAGGTATCTCATGGCACATTTGAAGAG
Seq A exon
GTAGGTAGACTGTCTGCAAAGCAAAGTCCACGTCAGGACCTCTAGGAAAGTGGGCAAGGCATGCCAAATTCTGCAGATTTGCAGTAGCTCCTGGAGGCTGGCTGAGGTGGAGAGTATTCACTACTGTGCAATCTGTCCCCCACGCACTGTTTTTTACCCCCACTTAAAGCAGTCACAAAGTATTTGAAGGATGTAAGTCAAAAAAGGCCACCACTTTGAAGCAGGAGAGTCTCCTACCTGCCAAATTTGCTCTACTTTTAACGTTGCAGTGAATATTTATGATTTAAAAAAAGCCTTTAGTATCTCTAGAAGTAATAAGTTACTGCCTGGGCAAGGAGCTAATACACCTCAGTGCTTATGGATTGCAGTCTTTTTCTGCAAAGTCTCACCTATCCTGATCGCCCCTGACACACTAAAAAGGAGGCACAAACTGGGCTTGAGCTGACAGCCAGTAGGCACAGAGTTACTTGTCCTGGTGAGGTTTGTTAGCATGGATCCCCTCATGCCAGGTGCCACCTTCTCAAAACTATGGGAACGTCAGTTCTGTGTGAGGTTCCTCTGCAGCCCTCAGGTGGAAGCCAGTCAGTAGGCTTCAGAATTGCTTGAGAGAGACTGACAAAAGGAGATCCAGTACAACAGCACAGGTGCTATTTGCTTCTGGAAAGTAGGGGAAAAAACCGGTTGTGGCATTTAAGTTTCTCTAATAACATGAACTTTTGTCAGCGTATGAGAATTATTCCCTTTCTTCAGGAAAAATGCAGCTTGATTTTAAGCTCTTATTTTCATTTTATAGCTCTTGCACAAGTTGACTCTGCAGAGGACCTCAGGCAGAATTCAGCTACAGGGCTTCTGCCTGACTTGCCCGTTCATTCATTTATTCCAGTGACATTTCAAGTGGAAGCTTTAGAACAGAGGCATGAACAAAAAAAACCCACCTGACTGCTTGTGATGCGTGAAGATGATTTTTCCTTACCTCGCTCAGGAGCTGCAGTTGCTGCTCCAGTTAGCAAGTTGACAGTGCACGCTGTATTTGTGGTATAGGTGAATGATAAGGTAGAAGGGTGACCAAATGCACTCGTTTTTAAACTTGCACTTAATGTATGGGATCCAAAAAGCCGTTCCCAGCTTCTCCTTCCCGGTGCTTTTTAAGGCTACATGATGACTGCACAGGAAGCATCTCACAGTGAGTGAAAAACCCTGTCCTTTCTTGCAG
Seq C2 exon
AGTAACGCTTCACGAAAAGGAAAATCTGATGAGTGCAGAGAACCTGGGCATCGTGTTTGGACCAACTCTTATGAGAGCGCCAGAACTGGATGCGATGGCTGCGCTGAACGACATCCGTTATCAGAGACTTGTGGTGGAGATGCTTATAAAAAATGAAGACATTTTATTTTGAATATTTTGGGGGTTTTGTAATAAAAATAATAATAAAAAAAAGGAAGCAGCGGTGTTCTATGGATGAAGGAATATTTTGAAGTAATTTAATGGCTCTTGTCGCTGAATTCCATATTTGCTAGAGCTTTCGATGTATTCAGGATAAAAATGAAGGAACTCTTTGTCATTTCTGTAGTGCCATTCAGCTGATGTTGAACAAGGTTAACACATACTTTCCAGTACTAGTAATCCTGGGTGTTTATCATGTGAAAATAAAAACCGAGAAGCCTGCAGCTATTGCATGATCTGCTCCCCGTTCTCCCCGCTCTGGTGAGAATCATTCCATGAAGAAAACAGCGGACCTGGTGCGGCATCTTTGTTCTGGATA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009293:ENSGALT00000042646:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0062022=RhoGAP=FE(22.7=100)
A:
NA
C2:
PF0062022=RhoGAP=PD(20.8=55.2)
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:
CCACCGATCCAGATGAACAGC
R:
TTCATCCATAGAACACCGCTGC
Band lengths:
342-1555
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]