GgaINT0014068 @ galGal3
Intron Retention
Gene
ENSGALG00000003917 | F1P2F9_CHICK
Description
NA
Coordinates
chr14:2251914-2252713:+
Coord C1 exon
chr14:2251914-2252087
Coord A exon
chr14:2252088-2252571
Coord C2 exon
chr14:2252572-2252713
Length
484 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTT
5' ss Score
8.17
3' ss Seq
GTTGCCTGTTTGTTTTCAAGGAG
3' ss Score
7.98
Exon sequences
Seq C1 exon
TTATATAATTTCTACCCATCCCTTGGATTTCTCATTGGAGCTTCCAAGACCGTGCTACAAAATATCAGTGAGCTGAGTGCCTTCCTCCAGGAACTCTTCAAGGAGCACGAAGAAGAATTTAATGAGAATAACCTAACAGGCTTCGTTGATGCCTTCATGATGAAGCAACAACAG
Seq A exon
GTACTTCAAAGCAAAATCTGAGGTTCTCTTGGCTCTGGCTCATTATTAGGACCGATCATCTGTCAGGGATGGAGGGTGAGTAAAAATAGAACTGCAGTGAGCACAACATGTTGAAGCTCATCCTCATGGTGAGCAGTGCTGTATCACTCCGCCACTCTGCTGGAACTGCTGGTTGGAGTTGTGCTGAAATAAGCTGCCACTCAACACATGTAGGGAGAAGACCATCCACAACCTCCCTGCAAGAATAATACGGTGGCAAGCCTCACTGCAGTAACTGAGTTCTTACAGACCCACTATCTGGATTTGGAGGCTGGATATACGCAAATTCTATACAGTGTAGGTCCTAATACTAAAATACTAAACATTTTGTTTCCCACAGCACGTCACCACAAAAACCTAAGATGCAGACACAGATGGTGGCAGTGCAGTCACTACTGGTATCACTCGCTGCAGAACTTACAGCTGTTGCCTGTTTGTTTTCAAG
Seq C2 exon
GAGTCAAAGAAACCCCACAGTATGTTCCACAATGAAAGCCTGCTGTTTTCAACCCTGGATCTCTTTGCTGCTGGGACTGAGACTACTTCCACAACCATGCGCTGGGGTCTCCTTCTGATGATGAAATACCCAGAAATTCAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003917:ENSGALT00000006238:5
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:
PF0006717=p450=FE(12.4=100)
A:
NA
C2:
PF0006717=p450=FE(10.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCTTGGATTTCTCATTGGAGCT
R:
TGAATTTCTGGGTATTTCATCATCAG
Band lengths:
295-779
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]