GgaINT0125101 @ galGal4
Intron Retention
Gene
ENSGALG00000008952 | noxa1
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:E1BWX5]
Coordinates
chr17:902674-904175:+
Coord C1 exon
chr17:902674-902847
Coord A exon
chr17:902848-904092
Coord C2 exon
chr17:904093-904175
Length
1245 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGG
5' ss Score
8.48
3' ss Seq
ATGTCTATTTTTCTCCTTAGGCA
3' ss Score
10.61
Exon sequences
Seq C1 exon
ATGGCGTACCGGGAGCTGCTGAGGCGCTGGCACCAAGCTGCGCTGGCAGCGGACGGCGGGGACTGGGACGCGGCCTTGGAGACGCTGTGCGGCATCGAGGAGCCGCCGGCCAGGATCTGCTTCAACGTGGGCTGCATGCACCTGCGGGCCGGGCGGCTGCGGGACGCCCTGCGG
Seq A exon
GTGAGGGCGGCGCGGGGCAGGCCGCGGCGGGGCGGGGGGCTCGGGCTGCTCTCCTCACCCCCTGTCTGAGGGAAAACGCCTTCTCCAAGGCGCCTTTCTCAAAGTGGCTGAAACCCATCAGCCTCTGTCGGAGAGCTCGGGTGTGGGTGTGAAACACGGAGCGCTGCAGCTCCGTGCGTCCCCAGGCGATCCTGCACGAGCTGAGATTGCCGAAAGGAGCCGCTATCCTGGAGCAGCGCGCCTGGTGGGAAGTGAGGCCGGCGGGGCGGGCGGGCGAGTGCTGAGAAAAAGCCTTACCGCAGCTTCCAGCAGCCAGGCGTCTGCACGGCTCGCTGTCAGCAGCCCAGCGGGGTGTATATAGATACTCTCAAACAGCAGAAGGCAGAACTCAGGCTGTGCTGGAAGGGGCCGGGGCAGAGCTGTGTCTCCTACCTGTGAGAGATGGTGTCTGAGAGCCTCCGAACAGCCCCGGTGAGTGGGCACTGCTGGGGACGCAGCTCAGCTGTGCTTCTGTGTAGACCAACGGCTGGCTGTTTGTTTTGTCTTTCTGTAGCACAGCAGAGCTGACTTAAAGCGAGGAGCGCTGGCTGAGCCACAGGAGGAGCAAGGCACCTCCGCCAGAGGGGCTCAGGCACCCTGAGGTCCTGCAGTGCTGTGTGTGGGCAATGTAAGGAAGCCCAGCGGTTCAGGCTTGATTCGTTGTCTGCATACTACCACACTGCAGTAAGGGTAGGAAGAGACCTCCTAGCATTCTCAGACGGAAAGGCTGTTCTGTAGCAGAGTGGGAAACCACTTTGAACCGTTGGCCACAAGCTGTTAGCAGCTTTCCTGATATTCAGCTGGGAAACGAAACAGAAGTACTGAATTGTAGGTGCAGTTTGTTTCTCTCTTTACACACATCACCATAGGCAGATTCAAACAGCCTGCTGTTAGATCTAGCTCTGCTCCAGGCAGCGGGGCCTGCAGGCTGCAAGACATCGGATGGCAGACAGGGCTCATTTGTGCATTCAGTCTTTTTTTCCCAAGGAAGGGTAAAATCTTGAAGCTCAGCTCATAGAGAAGCAAGACCTGAAAGAGGACTTGGAGCCATGTACTGCCCCTCAGCCTGGAGTGCAGCCCCACATTTCTCAGAGCAGACAAGCTGTTCACAAGCATAGGGGTGCCTTTTGCACCCAGCTGGGAGTATGCCCAGGCAGTGATGGAGGAGTCCTCACTCATCTCAGAGATGTCTATTTTTCTCCTTAG
Seq C2 exon
GCATTTGATGAAACAGTTATGAAGGACAACTCTCTCGCTGTCGGCTACTTTCAGAGAGGGTTTGTTTGCCTGCAGTTGGAAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008952:ENSGALT00000014558:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF134141=TPR_11=PU(32.4=39.7)
A:
NA
C2:
PF134141=TPR_11=FE(38.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGGCGTACCGGGAGCTG
R:
TCCAACTGCAGGCAAACAAAC
Band lengths:
254-1499
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]