GgaINT0034989 @ galGal3
Intron Retention
Gene
ENSGALG00000005752 | F1N8D7_CHICK
Description
NA
Coordinates
chr8:14421489-14422923:+
Coord C1 exon
chr8:14421489-14421636
Coord A exon
chr8:14421637-14422799
Coord C2 exon
chr8:14422800-14422923
Length
1163 bp
Sequences
Splice sites
5' ss Seq
CCGGTAAGT
5' ss Score
10.91
3' ss Seq
GTTGCTTCTGTTTCTTATAGACT
3' ss Score
8.11
Exon sequences
Seq C1 exon
GTGGGCAGCAATTCCCATGATGTACCCTGCTTCTTCTTTCTTCAGTGTTCCTAGCACTGCATACGTTGCATTGTCTTGCATTAATCTCTTCGTGGGGATCAACAGCAGTGCCATTACATTCATCCTGGAGCTATTTGAAAATAACCCG
Seq A exon
GTAAGTAATGTTTTTGTTGTGACATGGTTTTAAAAAGCAGTTCAAAGGGTGTCCAAACATAACCATCTCTAGCTGTCTCTTTCAGCCTTGTCATTCTTCTGGTATTATATAAGTGAATGGGGAACTTGCTGAGTTATGTCAGAAACAGGTGACTAGAATAACCCATGGAAGTGAACCTCAGGGTAATCAGTACTTTGGGCAAGCAACCATCCACATACATGAGGAATGACATTGAAGTAGCACTTAGCTCTGCTAGCCACATACAAGGATAGATAGAATACAGTAGTTCTTAGAAAGGTGAAGAAACCAGTTTATAAAATACTGGTAGCTTGTATGCACTACTACTGCCTCTACATTGCTGATACTTTGACCACTAAGGTTGACATCCTTCTTAATGCTGACTGCAATCCTATTACCTGTCATTACTGATAACGCATTTTCAGATACGCTGTGCTGATCAAGCATTGTTTTTATCAGGAAGAAAAAAAAACCCCACATCTTTATTCAATTGGAGTCATGATATCAAGGGCCAATTTTACAATATTTTCTATCCTTGCTGTTCTTGCGTTCTCTGTCATGTCCCTGGGCAGCATGGGATTCAGTCTACTGCCAATCAATCTGGGGGACAGCAGGCGAGTATCATCTCTGAGAACACATCTCCACTGCAGATATTGTGTCTCCAGTGACACAATGATAGAGGGATAACTGCCCTTCTTTGGATTCAGTGATGGTGCAGTTAGATTGATGCAAGTATTTTTACTGTTTTGGGTATTTCCACATTGCACCAAAGTCTACTGTGTAGCTCTGTCCAGACACTGGTGCTTCTCAAGATTATGAGAGTCCTGATTATGGAAATACTCCAGCCATAAATAAACATATTATGGTACAGAAGTACCACACTTGTTGCTCACGGTTCCTGTTTGTAATAGCTGACGCTGACATTGTGCCTCAGCAACATAGGATATTTCATTACAAAGATTATTTTTTCTCCCCACTGAAAATTTTTCACAAGCACCTTGCCTGGTACAGTGTATTCCGTTCTGCCACTGGTAAATGCGGAGCAAACCATTTCTCTGGCATGAAAAAAGAACTTTTCACTTCTTCTACTATGTTTTCTCAAATCTTGTTTGAATTGCTAACTATGTTGCTTCTGTTTCTTATAG
Seq C2 exon
ACTTTGCTGAAATTTAATAAAACTTTGAAAAATGTGCTAATTGTCTTCCCACACTTTTGCCTGGGTCGTGGCCTCATTGACTTGGCCATAAACCAAGCTGTGAGTGAAGTATATGCCAGGTTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005752:ENSGALT00000009238:39
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:
PF126982=ABC2_membrane_3=FE(14.9=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(12.5=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:
GTGGGCAGCAATTCCCATGAT
R:
AACCTGGCATATACTTCACTCACA
Band lengths:
270-1433
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]