GgaINT0037816 @ galGal3
Intron Retention
Gene
ENSGALG00000002182 | F1NVB5_CHICK
Description
NA
Coordinates
chr8:1670210-1671730:-
Coord C1 exon
chr8:1671612-1671730
Coord A exon
chr8:1670352-1671611
Coord C2 exon
chr8:1670210-1670351
Length
1260 bp
Sequences
Splice sites
5' ss Seq
AAGGTTCTG
5' ss Score
2.04
3' ss Seq
CTTTTCTATCTACCACGCAGGGA
3' ss Score
7.98
Exon sequences
Seq C1 exon
TGTCTCAGTTTAAAATGGTGAATTACTCCTACGACGAAGACCTGGAGGAGCTGTGTCCGGTGTGCGGAGATAAGGTGTCGGGGTACCACTACGGGCTGCTCACCTGCGAGAGCTGCAAG
Seq A exon
GTTCTGTACTCATTACTTCATGCAAACAGAAGCACAGCAAAAAAAGTTTCCAATGTAAACAAAAAAGACGAACTGAGGCAGCTGTTCCATAGTTGGGCTTGTTTCTCATGTGTTTCCTGCTAGATTCTCACGAAAAATGAAGCACCACGATGCTGCAGGGTTAGAAGTCTCTTTGAGAGATCTCCTTTGCACAAAAGGGAAGAAACAACGTGGGCTGTTTCCCATCGTAGCTTTAGAGTTACTCTGAAGTGTTTTGCTGCTGTAAAGTGATGTAATTATAGCGTAACTTTTGTTCCTAACTGCCCCAAATACTGATCTCCGTTGATTTACATATGCTTGGGCTCTTTCTTTTCCCGGAGGACAAAGTAAGAGTCCCCTCGGCACGGCTCACTCGCACAAAGTCCCACACAGCTGTAGGATTTCCCACCCCTCGGTACCACACGGCACATTTCTGTGACGATGGCTGTTTTTATTCCAACTGGGCACCGCCAGAGCTCACCTGACACAAAGCTATAAACGTCTCACTTCTTTTCAGTTGTTCCTTATTTCGAGAATAGAACTTTTGTTAAGGGAACCACCTTTAACTGCTTCGGAATTAATTTATCTGCATGGTTTTATTACACTAAAGTTTAAATATATATGAATTTATGGCACGCCCAATTTGTCAGGTAAAAATTTGCAAAGACCTTTACAGCCATCGCAGTAATGCACTGTAAGGAAGCTCGGTGGCTTGAACAAAGCAATTGAAAACACTCAGTTGCATGGCAAAACTAACTTGGCACATTATATTTTCATTTAAAAAAATCAATGAGAATTGAATAACAAGCACTTATGCCTTTAGCACGCACCACTGGGATACACGTTCACCAGAGGTATTCGGTATTGTTTTTATCTTTGCCACAGCGTTCCTCCTTATTTTACAGAGAACTGCTTTGAAGGGAACACTTATTTTACAGTTAAGCCATGCAGAAGGAGCTGCCCAGCTTCCCCTTCCACTGTGCCTACAGCCGCTCTCGCTAAGCCGTGATGCAGGTCTAAGAGGCAGAGCCCTGGCTCAGGAGAAGCTCCTGTAGGGTCTGGTGCTTTTTTCCTGGATACATCCCACTTTCATTTAAAACCAACTGTAGAACTTCCATTTAAAACCAACCGTGTAACTTCCTGACCAGAGCCTCACAAATACATTACAGTCCTTTCTGTGCAATGAAATGCTGAAGCACACCATTTGAGCAATACGGGCTGACTTTTCTATCTACCACGCAG
Seq C2 exon
GGATTCTTTAAGCGGACTGTCCAGAACAACAAGAGGTACACGTGTATAGAAAACCAGAACTGCCAGATTGACAAAACGCAGAGGAAGCGATGCCCTTACTGCCGGTTCCAAAAATGCCTCAGCGTTGGAATGAAGCTAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002182:ENSGALT00000003418:2
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:
PF0010513=zf-C4=PU(32.9=57.5)
A:
NA
C2:
PF0010513=zf-C4=PD(64.3=93.8)
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:
TCAGTTTAAAATGGTGAATTACTCCT
R:
TCTAGCTTCATTCCAACGCTGA
Band lengths:
255-1515
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]