GgaINT0034970 @ galGal3
Intron Retention
Gene
ENSGALG00000005752 | F1N8D7_CHICK
Description
NA
Coordinates
chr8:14397674-14399162:+
Coord C1 exon
chr8:14397674-14397851
Coord A exon
chr8:14397852-14399030
Coord C2 exon
chr8:14399031-14399162
Length
1179 bp
Sequences
Splice sites
5' ss Seq
CATGTAAGT
5' ss Score
8.31
3' ss Seq
GCCTCATTCTTTTTCCACAGGTC
3' ss Score
12.71
Exon sequences
Seq C1 exon
TAAATACCTTCTGTGAACCTGAGCCAACAGGATTGATTCCAGGAGTATGCATTCAGAACCTGGTGAAGATTTTTGCGAACAGGCCTAAGCCAGCAGTAGATAGGATGAATATTACTTTTTATGAAGGCCAGATCACAGCCTTCCTTGGTCACAACGGAGCAGGAAAGACAACCACCAT
Seq A exon
GTAAGTCTGTATTTCAAAGCAGCAAATCCCTCGCAGTCCTCTGAGTCCTGAGGAGCAGCCTTCCCTTTCACTCTTCCCTTGTCTCACCACTCCTGTAGCTAGACTGACACATGACATCAAGTTTTTTCCAGACAAGGAAATGCTGCCCCTAGGCAAAGGGAAGGCTTTGGCTTGGACTAGCCAAAGCACTGAGAGGAAGGCAGTGAGTGAGGGACAAAAAATAGTGTAATTATAGAAAGTAAGAAGTAATTATTTCCCCCAGCATTCATTTTGAATGTCCAAATTCCCAGTAGGTGAAAAGGGAGAAAGGTATTCTGACTGATAAAGCTGTGGATAAAGCTGCCACAGGTTGCACATTTCTGGTTTTTCTGTCTGACTTTGTCAGTCATGGTTTTTTTGCCAAGGTTTATAAATTCAGACCCTCTTTAGACAAAATAGTTATGTACATGCAAGATTACACTGATATTAAAATAATCCTTTAGTTCTAGAACCCTGGAGTCCCGGGAAGCCAGACTTCAGGACTGTATTTGGCAAAATAGGATTAATTGGTGAACAAAGCGTTTAATCAGTCTGTGATGAGTTCACCAAATGTTGGAGGAATTGAAGTGTTTCAGTACAATGCTCTCTAGTTTTTAAATTTAAAAACACTATTATTTCAAATGCACTGTAAATTGCCTTCAAAATTTTATAAATGTTTCATAAATATTTTTTATTCTCTTGATTAAAACAAAAGTGTGTTTTGCTTTGAAATTTTGGAAACAAAAAAAATCCATTATACCATCCATTTGCAACCTAATCTTCTGCCCCAGTCCATCTCACAGAAAATAAGGGTGAAGGGCATGTGCCAATCAGCATGGCTAGAGACCTTAAAATATAACTGCACCTACTAGGCTTCATTTTAGACCCATTTGTACACAGGAGTGGTGTAACATACTTAGTAAATTACTCTGAAACAGAACCATACAGTTTGGTCTATCAGAAGTTTAACACATGAGCAGATCCACAACATTCTCATTACAAGTAGGGCAAGAGTATGTAGGTATATACTTTTTCATTATTTTTCTTCAAAGCCCTTGATAACAAGTCATCATGCTCCATCTAGTGGAATCATGCAAGAGGTCTTCCTAATCTGGAACAGAAGGATGCGTGAGTGGATATTGCCTCATTCTTTTTCCACAG
Seq C2 exon
GTCGATACTGACAGGCCTCTTCCCACCTACGTCTGGAACTGTGCTGATTGGTGGCCTGGATATTCAAACTCACATGGATTCCATTCGGCAAAGACTAGGCATGTGCCCTCAGTACAACATCCTGTTTAATCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005752:ENSGALT00000009238:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.033 A=NA C2=0.089
Domain overlap (PFAM):
C1:
PF0000522=ABC_tran=PU(18.6=45.0)
A:
NA
C2:
PF0000522=ABC_tran=FE(30.3=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:
TAAATACCTTCTGTGAACCTGAGCC
R:
TGATTAAACAGGATGTTGTACTGAGG
Band lengths:
310-1489
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]