GgaINT1002553 @ galGal4
Intron Retention
Description
NA
Coordinates
chr2:496694-498552:-
Coord C1 exon
chr2:498271-498552
Coord A exon
chr2:496826-498270
Coord C2 exon
chr2:496694-496825
Length
1445 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACG
5' ss Score
10.52
3' ss Seq
GGTGCCTCCTGCCATTCCAGGTC
3' ss Score
8.15
Exon sequences
Seq C1 exon
TGGACGGTGGTGGCGGCGGTGCAGGCGGTGGAGCGGAAGGTGGAGGCGCAGGCCCTGCGGCTGCTGAGCCTGGAGGGCCGCGCCGAGACGGCCGAGAAGAAAATGTCGGAGCTGGAGAAGGCCGTGCTGGAGGTCGGAGGGCAGCTGGAGCGCCGCTGGGCCGCCCTGACCGCGCTGCTGCAGGAGAGCGCGAGGCGCCTCGAGCACGTCGAGAGGCAGCTGCGGCACCGGGCCTGCTGGGCACCGCGGCACGGGCTGGGCGGCGGCGGGGATGAGCCTCAG
Seq A exon
GTAACGGGGCGGAGGTGGTGGGGATGGGGGACGAGTCCCGGGGCACACAGAAAGAGCCCAAGGGATGAGCGCCAGGTAATGAGAGATGTGCCCTAGGGAACAGGGATGAGCCTCGGGTAATGGGGGCATGCCCGTGGTGCAGGGGATGAACGCCAAGGAATGAAGGGTGAGCCTCAGTGAAGGGGGGTGAGATAGAGGTAGTGGGGTTCAGCCTCAGGTGACGGGGAGGAGGTGATGGGAATGGGGGATGAGTCCCTTGGGTAACTGGGAGGAGCCTCAGGGTGCAAGCGATGAGCCCCAAGGAATGGGGGATGAGCCCCCAGGCACAGGAATGAGCCTCAGGTAATGGGGATGAGTCCCAAGGTGCAGAGGATGAGCCTGAGGGAACAAGGGATGAGCCCTGGGGAACAGGATTGAGCCCGAGGTAGTGAGATGTGCCCTATGGAATAGGGATGAGCCTCAGGTGATGGAGGCATGCCCATGGTGCAAGGGATGAATGTTAAGGAATGGCGAATGAACTCCCGGGAACAGGGGATGAGCCCAAGGTAATGAGGGATGAGCCCTGGGGAATGGGGAAGAGATAGAGGTAGTGAGGTTGAGCCCCGCGTAATGGAGAGGAGGTGATGGGAATGGGGGATGAGCAGCCCGGGTAACTGGAATGGGTCCCAGGGTGCAAGCGATGAGCCCCAGGGCACAGAGAACGAGCCTCAGGTAATGGGGACGAGTCCCAGGGCACAGAGGATGAGCCCACGATAATAAGGGACGAGCCCCAGGGATCAGGCAGTGAGCCCAAGGTAATGGAGACAAGCCCTTGGTAATGGGGATGAGTCTGAGGTAATGGGGATGAGCCCTGGGGCACAGGGCATGAGCTGTAGGGAATGGAGAACAAGCCCAGAGTAACAGGGACAAGGAACAAGTGTAAGGTAACAAGGGTGAGCCCAGGGGAATGGGGTCCAGCCTCAGGAAATAGGGGACAAACTTCAGGTAACGAATGTGTGTAAGGCAGTGAGGATGCACTCAAGGAAACGGCGTGGATGAAATGCTCCTGTGGGTGTTGTGTAGGGCGGGGCAGCGGGGATGTGGCTCCTCTGATGCTTTGCCTTAAGCCCTTCCAGATCCTCCCCATCTCCAGTGAAAAGAGGGAACAAAGTACAGATGTACCACTGTGTTTTCAGCCTTGCTGAGCCCTGGTAGTTCCCTTGCAGGGTAGGACGGTTCCTTCCCATACATGTCCTGCTCTGATGTGATGGGCACTGCCCCAGGTCGATGGTGTGGATCTGGAGAAGGAGCTGCAAACCTCCTGGCTGTTCAGGGAGAGGCCTCAGCTCAGGCCGGGGCATGGTGCCTTTCCCCAGAGCTCTGTGCTGTCACACAGGCATACAAGGGGGCTGTGTGGGGGGAGACGAGGCAAGGCAGTGCTCAGGAGGTGCCTCCTGCCATTCCAG
Seq C2 exon
GTCCCTGCGTCAGGTGAGGACGATGCTGCCTGTTTGCCAGAGCAGGAGTGGGGCGGTGTGGACAGCCGGCAGCAGGAGCTGTACAGGATGGCGGTGAAGGGGAGCTACGAGGCTGTGGTCTCTCTCGGTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000019711:ENSGALT00000007818:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.149 A=NA C2=0.409
Domain overlap (PFAM):
C1:
PF124173=DUF3669=WD(100=75.5)
A:
NA
C2:
PF0135222=KRAB=WD(100=86.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGAGCGGAAGGTGGAGG
R:
CTTCACCGCCATCCTGTACAG
Band lengths:
353-1798
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]