GgaINT0038434 @ galGal3
Intron Retention
Gene
ENSGALG00000003164 | F1NQQ1_CHICK
Description
NA
Coordinates
chr8:4621154-4622643:-
Coord C1 exon
chr8:4622417-4622643
Coord A exon
chr8:4621392-4622416
Coord C2 exon
chr8:4621154-4621391
Length
1025 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATG
5' ss Score
9.43
3' ss Seq
AATCTCTGGTATTTTACTAGGTC
3' ss Score
7.02
Exon sequences
Seq C1 exon
GTGAAAGAATTTATCAACGCTGAGCTCCTGGCTCACCTGTATTCTTCTGAGGACCAAAATACTCTAATGGAGGAATCAGCTGAGCAGGCACAGAGGCGAGATGAAATGCTCCGCATGTACCAAGCTCTAAAGGAAGCCCTAGCAATCATTGGTGATATCAGCACTAGCACTGTGTCAACCCCTGCACCACCTCCTGTAGACGATTCTTGGCTTCAGCAGGCCCGCAG
Seq A exon
GTAATGTTCTTCATTTGCTTTGCAATGAAATTTGGGAAAGGCAGACATTATTAGCATTAGCAACTCCCTTCTTACCCGTGTTTTGGGCAGGTACTTCTCCAGGTCTTTAATGACACTTGTGAGGGAAATCAGACATCTTGGTATTATTTAGATGCTATTTCGAGCTGCTTAGAGTACATTAAGATAAAGAACATGCAGATTTCTTTTCCTGCATGCTGCCTAGAATACCTGACACAAGACAGACGTTAAATACCCATGAGCACTTTCTAGTAAAGCCGTCAGCCTTTTCCCCAGCATCCTGTGTTCTGTTCAAGCCTGGCTTGGAGAAAAAGCTGCTTCTAGTTCTGGTTTCAGTGAGCTGCATCTTACCTAAAGTGCCAGGAGCTTTGTGTGCTACCATGTTATACTAGCTGGAAGCCGAATCGAGAAACCCAGATCCTGTGCTCCACAGCAGATGTGAACCTGCATGCATGCTGTATGCCCCAATTTATGTTTATTTTTCACAAACCTTTTCCCACGTATACACGTTCTATGGGTATGTATATAAACACCAGACAAGACATTTGTCTGTGAGAATACCTTACGTTGGATTTACAGCTTGTCTGATGCTTCAGATAGCAGCCACTTCTGCCACCAAATGGTGTTTTAACTCCTTTATTGCAGAAATCCCACCTGTCTCTGCAAACTAACCCCAACTGTGTATCCACAAGGCTTTTTCTTGCAAGCTTTTATTCAACTTCAGTCCTTCAGGCTGCATGTCCTAGCAAATCCTTTTCATACAACACTGTTAGAATCCCAGTATTTCAATCCATGACATTTTAGCTCTTTGCCTGTATTTCTCTTTCTTCTATCTCAGAGCATGCTGTCTATGGGAATGGTATATGTTAGATATAAATACAGGTCTGAAACTGGCAGCAAAGGGGATGCAAAGCAAAAAAACAATGTTTTCACTTCTATTTTTCTTTTTTTAATGAATAAAATATTTGCACTGTATCAAACATCTTCAATCTCTGGTATTTTACTAG
Seq C2 exon
GTCGCCTCCTCCAAGTCCCTCAACTCAGAGGAGGCCTACATTAAATAATCCTCCCACCAGACCTTTATCTGGCCGAGGACCTGCTCCTGCAATCCCATCTCCAGGCCCTCAGTCAGGGGCTCCCCCGGTCCCATTCCGCCCAGGACCATTGCCACCATTTCCAAGTGGTGGTGAAGCCCATGGAGGACCTCCCCAAGTTCCTTCTCGGCCGACGCGGGCTCCTCCCAGTGTCCCAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003164:ENSGALT00000005010:22
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.441 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0221213=GED=PD(56.5=68.4)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGAGGAATCAGCTGAGCAGG
R:
CATGGGCTTCACCACCACTTG
Band lengths:
342-1367
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]