GgaINT0116736 @ galGal3
Intron Retention
Gene
ENSGALG00000019221 | F1NKH4_CHICK
Description
NA
Coordinates
chr1:91934915-91936885:+
Coord C1 exon
chr1:91934915-91935186
Coord A exon
chr1:91935187-91936748
Coord C2 exon
chr1:91936749-91936885
Length
1562 bp
Sequences
Splice sites
5' ss Seq
ATAGTATGT
5' ss Score
4.41
3' ss Seq
AGCATTTGTTTTTTTCCTAGGTC
3' ss Score
8.39
Exon sequences
Seq C1 exon
ATACTCTGCTCCATCAAGGTGGAGAGCATATATGGGCTTACACACTGTTAATGAAAAGAGCAATCACATAGCCATGAGATCGATCAAAAGGATTATTGTCCACCCACAGTATGACCAATCTATCTCAGATTATGACATAGCCCTGTTGGAAATGGAGACACCTGTATTCTTCAGCGAGCTGGTACAGCCCATTTGTTTACCAAGCAGCTCTAGAGTATTTCTTTATGGAACTGTCTGCTATGTAACTGGCTGGGGAGCCATAAAAGAAAATA
Seq A exon
GTATGTTCATTTCCTGGATATACTTCTTGCAATTTTGGCTTAATTTTAAACATTAACAATGAAATATTTATAGTCCTACGAGAAAATACTTCTGGTCTACTTGAAAATGTCGAAATAGCTAGGCTATAAATTCTGAATATACTTGTAGTGTGCAGTAGGTATCAATACACATACTCTGTATGGGGGTCAGAGATGATGTCACAGATCACTGAAAAACACGTATGTTACATTTACAATAAACGAGCCCATTTCCATCTTCATAGTTCCATTTATCCAGTGAATAGTAATAATCTACCTTCAAGTCAAGAAAACAGGAACTTGGAAATACAGAGGAGAAAGACTTTGTCTCTAAGGCTGTGGTTAACAATATGGAGCCCCTGAAATAACTGCAAGAATATGGTGGCTTTTGGAGTTGTCTGTCTTAACCAAAGGTAAATTCACGTTTGTCCCAGGAGGAGTGCTGACTGTGCAGATCAGAGCAGCATGCTGCAGTGAGGAGGCAGGAAAAAAAGCAAGCAGAATTAGAGAGAGCCACAGAGGAGCTTGTAGGATCTTGGCCCTATTGCACCGGAGCCGGCTTTGAGACTTGAGTGTAGACAGCTCCTCAGCATTGCATTAGTCTCCACTGTTATGCTGAGATCAAGTGCCTCACGTTTAATCAGAAGCCATCTGCTGTGGTAGTGTTGGCTTTCCTAATATGCGAAAAATAACAAATAAATAAATAAATCTAAGATAACCACTTAATAGCCTAATAAGTTGCAAATGATTTTTTTTTTCAATGATGCCTTCTTATACGATCCTTTATCAAAATAATTTAGGTAATATTTAAAATCAGTCTAAAGGTATGTGGGAAAAAAACATATTTTTCTCTCTTGCCTATTTCATTCCCAACTCACCCAAATAGACTAATGAGTAAACAGACTTCTGTTCATCCAGATATTGAAAAGGTTGTGCTCACTACTGGGGCAAAACATGCCTAAGGATACGTAGTTCACAGCAACACCTTATGCCAGTGCTTTAGTATAGAATCAAGCTCCTAGTATGTCTTGTGACTTACATGCTTGAATTTCAGTCCCCTTTTGCTTCCAGTTGCATTCCTTGGCTCCTTATCCATAAGTGAAAGGATGGGAAACAATGCAGGAATTTCCTTGGCTAAGCCATACACAATGTTTAGAGACAACCATAGTGGAAATAACAAAAAGCTTTGGGAAAAAATTGAAATGGCATTCAAAACTAGTTACGTTCAGTAGTATGTATTGTATTATTTTTATAATTCAATGACTTTTTACTACTTTGTGGCAGAAGAAGTTCATAAGAATAAAGACTGAGGAAATGGAAAGGGAATACTGGTGGTGCATATGGACTTCTTTGTCTAAAGATGTCTGTGTAGACAGCAGTGTTCAAAGTTGAGAGCAGGCCCCAATTAAAGACAGAGGAATTACTCTCCAACTATCAGTTGGGTAGAGTTTGAGTTTGGAGCAATTCTCCTTTGTTTTAGCAAGTGATTTCCATTGTAGAAATCTCTACTACTGTCATCTCTGCAGCATTTGTTTTTTTCCTAG
Seq C2 exon
GTCATCTTGCTGGAACACTGCAGGAAGCTAGAGTGAGAATAATTAATCAAAGCATTTGCAGCAAGCTGTATGATGATCTCATCACATCACGCATGCTCTGTGCTGGGAACCTTAATGGTGGCATTGATGCATGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000019221:ENSGALT00000024826:2
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:
PF0008921=Trypsin=FE(38.9=100)
A:
NA
C2:
PF0008921=Trypsin=FE(19.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTCTGCTCCATCAAGGTGGA
R:
CATACAGCTTGCTGCAAATGCT
Band lengths:
342-1904
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]