GgaINT0132801 @ galGal3
Intron Retention
Gene
ENSGALG00000004364 | ABR
Description
NA
Coordinates
chr19:6266571-6268648:+
Coord C1 exon
chr19:6266571-6266999
Coord A exon
chr19:6267000-6268543
Coord C2 exon
chr19:6268544-6268648
Length
1544 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGC
5' ss Score
7.93
3' ss Seq
CTCCTTGCTGTGTTGCACAGGGC
3' ss Score
7.53
Exon sequences
Seq C1 exon
TGCAGGCGGAGCACCTGGGGAAAGCATTGGCCAAGGCAGAGCCAGGCAGCTCCGCCGTCCCCGCTCGGGTGACCTCGCCGTCCCTGCTGCCGTCACGTGCGGGTGGCTGTGCTGCTGCCTGGGGAGAGCCCCGCAGCGGGGCCAACGGCCTGAGCTGGGGCAGGCGGGAGCACCGGGGATCCCATAATGGCTCCTTTCATCCAGAGGCTGTGGCCGGCATCCAGGGCTGAGTCAGGCCCGGCTGGCTCGGCTGCGTAAGTCCTCACGTCTGAAGCCTTGTGGGGTCCCCGCAGCCCCCCTGGTGCCCAGCAGGCCATGGAGGAGGAAGAGGAAGCCATAGGGTACCTGGATAAAGTCCTGGAGGATGAAGATGACTCTGAGCCAGGAACCCCCACCAGCCCCGGGTCTCCATTCTCGGCCAGTGAGAAG
Seq A exon
GTGGGCACCCGTGGGGCACCCTGCTTCAGTGCTGGATGGGGTGGGGATGGAAATGGGCACCTTGCTGCTGCTGGTATGGGCTTAGGGGCTTGGGTGTGAGGTTTTCCAGGGCAGGGGTGAGGAGGGAAGCGAGTGCCAAGAGCTCGGCCGGTGTCTGTGTGTGCCTGCTGGGGTGGGCTGCTGTGCTGGCAGATCTGGGATGCTCGGGATGAGGCTGGACCGCTCTGTGTCACTGACTCACTGCACAGCCATGAGCAAACTCCCTAAATTGCTCCCAGCCCTGGTACTTTGGCCCGGGAGGTGTCCTGGTACCTCTAGCTGCAGCCCTTTGCCTTCTAGCCCACCTAGCATGGTTGCTTTGTGGGAGGTGGAGGAGATCTCCATCTCTGCTCTCCTTGGGGTCTCCTTCACGTGGTGGCCGCTGGACCCTGTGTGAGGGTGGACTTTTTGCCCCTTGGGGCCGTGGGGGTCCCACTGACACCATCCTCAGGGGCATCACAGGCCTTGGGTGCGAATGTGCCCCCCTTATCCTCTCAGCCTTCACGCAGGGCCCAGCCTCAGGGGAAGCAGGAAGAGCCCGTGACTAATGGTGGCAGCGAGCCCGCCAGCACCAAGCAGGCTCCCTGTGCTCCCCCCACACAGCTCCCTGCAGCCTGGCCTTAACGGTACCGCTGGGCAGGGAGCACTGGGCTCTGAGCTGGCTGATGGGACAGGACCGAGTGGTACCCACACAGAGTGGGACAGGAGTATTGTGTGCTTCCTGACTGTGCTTCCATCCGGGGGGGGGGCCTGCTCATGCTGCTTATGGCACCCGAGTGAGGCTGCATTGTTTGTACCCTTGGTGTGGTGCCCATGGCTGACAGAGAGAGAGGACCATGTCCTGCTANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGAGGCAGTTGAAAGCCCAAGAGAGGCATTCAGGGTTGTGCCTGTCATCGCACATCATGACGTCTTGGGTGGGATGTGCATCCCTTCTGAGGAGAGCAAAAGCTTCTGGTGTGCCTGGATGGGTGCTGTGCTCCCGGCAGTGGACCAGCCCTGATGCCACCAAGCAGTGACACGGGGGCTGGCAGTGACCACAGGGGTGGCACTTTCCCAGAGAAAACCCCAGCTGGGAAGAGGGTGGTGCTGGCTCACAAAGCCAGCCTTAGGGCATGGTCACTTTGGGCGCCTGTGGACTCTGCCCTGGGAGGGTTTTACCTCACTGTGCCGCCCTGGAGCGCTGCCTGCAGTGCTGGGCTCGGGGCCAAGCAAAGTCGGTGCCGCCCCAACTTCCCAGCTGGCTCCAGCCTGGCTGTGCTGTCCTGCAGGCACGTACCCGGCCCTTGCTGCAGTGTCTCTATGCTGGAAGGGATGTGTCCTCGTGGGGATGCTGGGGCTGGTGGGATGAGGGGCTGTGTGCCATGCTGACTGCTGGCTGAGCTGGGCTCCTTGCTGTGTTGCACAG
Seq C2 exon
GGCGAGAGAGATGCTGGCAAAGGGCTGGAGATGCGCAAGCTGGTGCTCTCCGGCTTCCTGGCCAGTGAGGAGATCTACATCAATCAGCTGGAGGCACTCCTGTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004364:ENSGALT00000006958:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.868 A=NA C2=0.043
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0062115=RhoGEF=PU(10.4=57.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGGATCCCATAATGGCTCCT
R:
GTGCCTCCAGCTGATTGATGT
Band lengths:
352-1896
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]