GgaINT0124370 @ galGal4
Intron Retention
Gene
ENSGALG00000004719 | SPTAN1
Description
spectrin alpha chain, non-erythrocytic 1 [Source:RefSeq peptide;Acc:NP_001036003]
Coordinates
chr17:5167409-5168196:+
Coord C1 exon
chr17:5167409-5167456
Coord A exon
chr17:5167457-5168104
Coord C2 exon
chr17:5168105-5168196
Length
648 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACA
5' ss Score
8.92
3' ss Seq
ATTTTTTGTTGTTGTCCCAGGAA
3' ss Score
7.78
Exon sequences
Seq C1 exon
TCTGCACGTATGATGGTACACACAGTGGCAACGTTTAACTCAATCAAG
Seq A exon
GTAACAGTACAGCTTTTCCTGCCCTTACATAAAAGCTGGGAACTATTTCACCTTCCTTTCCATAGCCTTTTTCTGTCACTATGTTTTATAAGCCATTTTGAATAAACTTATCGAGAGAATTGTTTAACAAATAGCATTTCCTTCTCAAGTTACATCAGAATCTTCTTATATACATGGAATTATTTATTCTTCCATGTCAGGAGAAGCCTTTAAAATTATTCTTCTGATCTAGACTAATTGAATTTGTACTCCCTTTGGACTTAAGCAGAAACAGTGACCTTCACCTTCAGTGAAAGTCCACTCTTGACCTCTCATTTGATATTGACTACTTGGTAAAAATCGCTTGCATTCTCTGAGTAATACAGGTGTTATCAGATACCTTCCAGCACTACTGTCAGCTTTCTCAGTAGAATTGTGAAAAATTGCCTATGAGGATATGGACATGGAGAAGGCATAGCTGGCATGTTCACAAATGTCAGCAGAATGAGAAAGAGGTTTATAAGCCTGGTGAACAAAACTTGCTGGATACTAAGTTTTTCTGTTTGTCATAAAGCTTCAGTGCCATACAAGAGTTTCTTTATGCAGAAATGCTGTAGAACGGTGCTTTGCAGTGTCGGTATGGGGTTTTATTTTTTGTTGTTGTCCCAG
Seq C2 exon
GAACTGAATGAACGCTGGAGATCCCTGCAGCAGTTGGCAGAGGAGCGAAGCCAGCTGTTGGGCAGCGCTCATGAAGTCCAGAGGTTCCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004719:ENSGALT00000039770:28
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.062 A=NA C2=0.323
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0043516=Spectrin=PU(6.7=22.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]