GgaINT0068416 @ galGal3
Intron Retention
Gene
ENSGALG00000013571 | F1NUN5_CHICK
Description
NA
Coordinates
chr4:63224610-63226792:+
Coord C1 exon
chr4:63224610-63224784
Coord A exon
chr4:63224785-63226616
Coord C2 exon
chr4:63226617-63226792
Length
1832 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
TAAGTGTCTTTTTCCCTCAGTGT
3' ss Score
8.65
Exon sequences
Seq C1 exon
TATGTATGCAGCATTCTTCAAGAAATATTAGGATAATTGGAGGGACGGACTCTTCCCCTGGTGAATGGCCTTGGCAAGTGAGCTTACATGTGAAGCTATCTCGCCAGAGACACCTCTGTGGAGGCTCTATCATCAGTAACCAGTGGATCCTTACAGCTGCCCACTGTTTCATGAG
Seq A exon
GTGAGTCCTAAATGTAAATTAACACATAAAATTTTCATCCAGTATCTGTGATTAGTTGAGGTTCACCTTTCAGAAAGATAAATCTGTGTGATTAAAATAACTAGAACAGAATCAACTACTTTGATATAACCAGAAGGTGAAATTTTAAGGTAGTCAGTTTGTACTCTTAACATAATTGGCACTCCACACTTTGCCCTTTGTAGCATAGTACTGTGCTACTGATTATTTTAATGCATGTAAGGCAGATGATAGATACCTACAAGAGTGTAAACTTTCTCATGCAACATGAACTTTTTCTTACTGTGATATCGTATTATCAAGGAAAATCTGTTGTTAAGTTAGTCATTCAAAGTATATAAAGTAGAATATATCAGTGATTTTTCTGTGGTACTTAGGCAGTGGTACCAATCTGACAGGGTGCTCAGCAAAGGCCAGGACACAAGGTAAATCTCTAAGGGGTTCAATTAGGCTGACTCTGGAATGTGCGCTACCTTTCTCTGTAGCATTCAAATCCTAATTGGACTGGTTTTCATTTAATATTTTTTATTTCCTAATGTTACCACCCAATCAATTAACACACTGTTTTAGTACAGATTTCAGCCTTGAGAACAATATCTAGATGTCTGAATACTCAAAGCTTTGCTAATTTGCTTGGAGATATATGGTAGGTACTGTTAATGACCACAAAATTGCCATCACATTTAAGTCATGAAATCATGTGTGTTGTGAAGAGCTAATTTAATGATCAGGTACATGATCCATATCCTCGTTAGATGATCACAACCTGTAAAGCAGGTAGGCCTGTCAATTACAGTCTGAAAATTGTAAGGTTATATACTAAGTCAGTGTAATGTGAGAAAGGCACAGGTAGTATAAAATGCTTTGAGGAAGAAAGAATTGTCTAAGCTAAAATCAGAAACTTTTGCTCAAGCATTTTTGTACAGTATCTCTTATTGTTTCAGCGTGAAGTAATATTGCCAATACCAGTTCTCCAGTGACAAACCTTACAAAAGTGGATAACACCCCTAAACACTCAGAAAAACCCAGTATAGAGAATATCATTCTTTACCATCTCTCCAATATTGCAGAGTTACCAGTATTATGAAGGGCAAAAGGAGAACTTGTCTAAAGAGTAAAAAAGTGCGGACTGTGTTCATTAGAAATGACTAAGGTCAACTGATATTTATGAATATACACATAAAATCTTCAAATCATTTTTTTTTAATACTGAAGACAGGTTTTGCATCTTCTTCAATGCAATCTTAATGGTAGAACACAGCAATGAAATAACCCTTAAATTTACTTAAAGTTGAAATCATAAATATTAAGTGGAACATTTTATACTGGTCTGTAGTATTATATTTCCTATTTGCTTTTATTTTGGTATCCAAATAGACTCTACTTGGATTTGTATTTCCACACCTATTTTGGTTGCTACAGTACTGGAATGAATGGAAAGAATCTCTTTTACTTCCTCAGGGTTTGTGTTGGGCTCTTGAAGATAAAAATAGTAAGAGCAGAGTAAAACAGAAAATGAAAAAAGGCAGAAGGGGAAATTTTGTTAAAAAGGGTCAGAACGAGAGTCTGGTTGTAAGGGAGAGGAAAGAGTGGTATGGGGCTGAAAATACAGATAGGAAAAGGAACAAAATAAGTGAGAAGTGGAAGGAATGGATAAGAGAAATCTGTTTTTAGGTTTGAGAGTGTGAAAATGCAACTGCAAAGAATGACCTCAGTGCTGTTCATTGTACACTCAGAGGATGCTGGCACCTGCACCAAACTAAAACAGTGAAAATCTCTGAGCCACAGGCTGACTAAGTGTCTTTTTCCCTCAG
Seq C2 exon
TGTTCAGAACCCCAACATTTGGCGTGTTTATGCTGGTGTTTTAAAACAATCAGAAATAAATGAGAATACACCTTTCTTCAGAGTGGAAGAGATTATTATTCATCCTCAGTATAATTCTGCACAGACTGGATATGACATTGCTTTACTGAAGCTTGATAAGGCTATGAATTTTACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013571:ENSGALT00000037595:10
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=PU(20.3=79.7)
A:
NA
C2:
PF0008921=Trypsin=FE(25.5=100)
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:
ATGTATGCAGCATTCTTCAAGAAA
R:
TTCATAGCCTTATCAAGCTTCAGT
Band lengths:
342-2174
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]