GgaINT0052791 @ galGal3
Intron Retention
Gene
ENSGALG00000007330 | Q5ZJ21_CHICK
Description
NA
Coordinates
chr5:18132181-18133100:-
Coord C1 exon
chr5:18132973-18133100
Coord A exon
chr5:18132332-18132972
Coord C2 exon
chr5:18132181-18132331
Length
641 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGT
5' ss Score
11.45
3' ss Seq
GTGTTCTGCTCTCCCTGCAGTAC
3' ss Score
10.94
Exon sequences
Seq C1 exon
GCTATGAGCTCCTCTTCCAGCCGGAAGTGGTCCGGATATACATCTCCCTGTTAAAGGAGAGCAAGACTCCAGCCATCCTAGAGGCTTCAGCAGGAGCAATTCAGAATCTGTGTGCTGGCAACTGGACG
Seq A exon
GTGAGTGCCTTGTAGAGCTGGGCATGTTGGTGTTCATCAGTGTTGAAGGGAAGGGGGATTTGGGGAGCATCACTTTTTGGTGTCAACAGAGCTGTAAAGTGTCAAAGCTCTGGCATTCCAGGCTGTTGCAATTCATGTGGCTTGCTCTGAAGAAGACATAATTCAGCAGCACAGCTCCAATGTGGACTGCATCTCTCATGTACTGTTAAGGGCTCTTTGCTCTCTGCCAGCTGTTTCTTTCCAAGGGCTGCCTGTGTGTCTGCCTGCAGCCTCTTCTCTGCTGCCACTTCCCTTCTGCAGTCTGGAAGATGGGAGTGTAGGTTTGGGCCCACTCTGTAGTCCTACTGTGCCTTTGCTCTGTATTCTTTGTGCGTATGTAAAGATCAAACAAAATCGTGCTTACCTGGCTGACAGGTGGCTTTGACACCTGTAAATCAACCCTCTCCCATTCCCAGGCATTGCCTGGGGTTACTTGGAGATGGATCTGGGACCTTCACAGTGTCTCTGCCTATGGGCAAACCCGGGGCCATTGGTTTCCAAGGTGGGTGGGTGGTAAAGCTCCCAGTAGTGCCGCCATGCTCAGGAGCAGGGTGAAGCTGTGCCTGCCTGGGTTCCACCGTGGTGTTCTGCTCTCCCTGCAG
Seq C2 exon
TACGGCCGGTACATCCGCTCGGCACTCCGCCAGGAGAAGGGACTCTCTGCCATTGCTGACCTCCTGACTCATGACAGTGAACGTGTGGTGAAAGCAGCATCTGGAGCCCTCCGCAACCTGGCTGTTGACTTACGTAACAAAGAGCTGATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007330:ENSGALT00000011857:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0051418=Arm=PD(95.0=88.4)
A:
NA
C2:
PF0051418=Arm=WD(100=76.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTATGAGCTCCTCTTCCAGC
R:
CGTAAGTCAACAGCCAGGTTGC
Band lengths:
262-903
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]