GgaINT0118287 @ galGal3
Intron Retention
Gene
ENSGALG00000016323 | Q5ZLT2_CHICK
Description
NA
Coordinates
chr1:121554867-121556437:-
Coord C1 exon
chr1:121556253-121556437
Coord A exon
chr1:121554957-121556252
Coord C2 exon
chr1:121554867-121554956
Length
1296 bp
Sequences
Splice sites
5' ss Seq
ACAGTAAGT
5' ss Score
9.49
3' ss Seq
CCATTTGTTTTTCCTTACAGCGC
3' ss Score
11.93
Exon sequences
Seq C1 exon
CTTTTTAGACGTTTTAATTAAAGTCAGGAACAGACACAATGATGTGGTTCCAACCATGGCGCAAGGGGTGATTGAATACAAGGAAAAGTATGGCTTTGACCCATTTGTTAGCAGTAACATCCAGTATTTTCTAGATAGATTCTACACCAACCGCATCTCTTTCCGTATGCTCATTAACCAACACA
Seq A exon
GTAAGTAATTGCTTATTTCATCTTCAAGAGCTTTTGTTATTGCTTGTAATCCAGAAGCCGTATTTTTTGTTTGAGTATTTTTCAAACGCGTGACTAATTCTTAATGTTCTGTGCTAATGATGGTAAAGTTGTACTGACAACTGATTAACTTGGTACTTCACAGCTATCCGAAATGAATCCAAAGCACCAGTATGCTTTCTTCCAGAACTGGGGGGAGTTGTCACTGTGGCTGTCAGTTTTCAATCTTGTTGGCACAGACAGCCTGCGTAGTGATGCATGGTATTTTTAGATCTTTCTGCTCAGAAGTCTGTTAACGTCGTTTGTAGTGTTGGTGTTTATAATCAAATAGGAGGATGCAGGTTTTGAATAGGTTGTGCCCTGCATGTATTCTTTTTTAGTTTTTCATCAAGTTATGTAAACTTTCTTGCCTTTTAACTGATACTAATTGAGTATTATCTTATTATTATATTTTATTAGTATTATTTTATTTATTAGTATTATTATTATATCTTTATTACTATTATCTTTATTTTATTATATTTATTTTATTTTTTATTTTATTATATCTTTATTACTATTATTTATTAGTATTATTATTATCTATTATTGAGCATATCTTGTACCTTTTAGCTCTAAGAGCTTCTCTGTCTGCCCGGTATTCAGCTTTTATGGCCTATTAACAACGTATGAGTGCACCACAGATGATGGGGAGCAAATGCAGAGTAGTGCATTGTGAGGTTTAATACATCTTGTGTGTCTTTCCAGTAACCTTCCATGTGACTAGCATGTGCCATGCTGTGTGTGTACAGTTAACTTTCATGTGTCAGAGCGTACTGTGAGATAACTCTGCATTTATGTTGTGTTTCATTATTGATGCTGTTTATTACGGCGTGGCTCTGCAAGGAGCATTGTGCCTGTATATTACTTCACCATTTCTGGAATAGGAAAAGCTTTCATATTTTTTGCTTACTTCATACTGCCTCTGGTTCTTTATCAGAACTGCTTAATTTGCCAAAGCAGCAGAAAGTCACTTCTGCAAAAAAGCTTAAAATCTTTCTGCCTCATTGAGAGTTCAGCTCTCAGTGAAGGGTTTGGTGAGTGCCAGACTTTGCGTGAAAGTGGGAGTGGAGAATCATGCTGCTGAGAGTTGTCTTCAGCAGGGTTTCTGCCAATTTGCCGCAGTGTCTTTACATAGAACATCGTGCTATCCAGTAAGTTTGAGGTATCATCAGAGTTTGACTTGCTATGCTGTCTCAAGTGTAAAGGCAAGTTATTACCATTTGTTTTTCCTTACAG
Seq C2 exon
CGCTTCTTTTTGGAGGAGACATTAATCCTGCCCATCCCAAACATATTGGAAGTATTGATCCTAATTGTAATGTGGCAGAGGTGGTTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000016323:ENSGALT00000026334:4
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:
PF104364=BCDHK_Adom3=FE(37.6=100)
A:
NA
C2:
PF104364=BCDHK_Adom3=PD(12.1=64.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACGTTTTAATTAAAGTCAGGAACAGA
R:
ACCACCTCTGCCACATTACAA
Band lengths:
262-1558
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]