GgaINT0003873 @ galGal3
Intron Retention
Description
NA
Coordinates
chrUn_random:21790665-21792212:+
Coord C1 exon
chrUn_random:21790665-21790970
Coord A exon
chrUn_random:21790971-21791894
Coord C2 exon
chrUn_random:21791895-21792212
Length
924 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTGT
5' ss Score
6.99
3' ss Seq
ATATCTCATGTTGATGTTTGAAG
3' ss Score
-6.6
Exon sequences
Seq C1 exon
GATTCAGGCTGGTGAATGGCAGCACAGCGTGCATGGGCAGGGTGGAAGTGGAGGTGCAGGGAACATGGGGCACCCTTTGTGCCTCCCGCTGGGACCTCTTGGATGCCCACGTTCTCTGTCATCACCTCGGCTGCGGGTTTGCGGTGTCCGTTCCTGAAGGAGGGCATTTTGGGAGAGGAACCGGCCCGGTCTGGAGTGACTCGTTCCATTGTGAGGGGACTGAGTCCAGCCTGGATCACTGTCCGGTGACCGCCCTGGGGGCCTCTCCGTGCTCCCATGAGAACGATGCTGCCGTCATTTGCTCAG
Seq A exon
GTGTGTGTCAGGATAATGCTACATGAATTCTGCCTTGTGTTCCACATGGCCACCCAAAAGTCGGGGATCCCCTGGCATCACCAGGCTGAACCTCTCCCTGGNNNNNNNNNNAAAGGAGACTGCTGCTTTGATTGGCTTCTTTTAAGTCTGCGTAATCAGCTGCAGAGATATATTGCTCTCCTGTTGTCATTGTCCCCCAAAGTCCCCAGGAGCTGTAGCAGATAGTTGGGCACTGCAGGGCTGTGCCAGCAGGACAGGAGGCTCAGGATGGGGACAGAAGGACTCCTATTCCCTCAGGTGCTGTGGCTCCTCCTCTGGGTGCAGATGTGCAGAGGTAAGTGCCAACTGCCTTGACCAGAAGTCCAAGCCGGCCTGGGGCCAGTGAGCACCAGTGGTCATTGGGATCCCTCTGGGAAGGAGATTTCTTTCTAAGTGCCACTGAAACAAGGGCAGAAGTTGCTGAAGTACACGGACCCTGTGCTTTATTCTGTGTCTTTCTGGGTGGAGGAGTGTATCATAATTTTCCAGGACTACCGACTTTATGGCAGCCTGGTTATATTTCCAGACAATGAAGCACCCTTCTGTGACCCCTTGCTGACCAGCAAAATGCTCTTGATGCTGCTGGTGGCCCATCTGGTATTGGTGGCACTCAGTAATCTTCAGAGCACAGCCAGACTCCTCAGGGTCATCCTGAGAATTCTGGTCAAGCAGGGTGTGATCTTCTGGGTTGGGGTGACCCTCAGGATGAGTGTGGTGCTTCCTGGGAACATGGAAAGCCCTGGGGATGGTAGTGAGTCTGGTGATGTTGAGACAGGCAGTGCAGCGTCTCCCACTCCAGACCTTGTGACTGTGACTGTGCCTGGGTGTCGGGGTGCCCCTTTTTGGGGCCTGGGTCTCTCCTGAAATATCTCATGTTGATGTTTG
Seq C2 exon
AAGGGGCAGCAGAGGTGAGGCTGGCGGATGGCAGCGGGCGCTGTGATGGGAGAGTGGAGGTGAAACACCAGGACCAGTGGGGGACCGTGTGTCGTACCGGCTGGGATGAGAAGGATGCAGCGGTGGTTTGTAAGCAGCTGGGCTGTGGGTCAGTAAACAGTGCTGTAACGAATGCAAGATTTGTGCTAGGATCTGGCCGCATTTGGATGGATTATGTCGGCTGTCAAGGCACAGAGTCTGCCCTGTCTGACTGCACACACAGTTTATTAGGTGAACAGTACTGCACACACAGTCAGGATGCTGGAGTTACATGTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000022426:ENSGALT00000036004:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.010 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0053013=SRCR=WD(100=95.1)
A:
NA
C2:
PF0053013=SRCR=WD(100=91.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGTTCCATTGTGAGGGGACTG
R:
AGTCAGACAGGGCAGACTCTG
Band lengths:
357-1281
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]