GgaINT0124397 @ galGal4
Intron Retention
Gene
ENSGALG00000004719 | SPTAN1
Description
spectrin alpha chain, non-erythrocytic 1 [Source:RefSeq peptide;Acc:NP_001036003]
Coordinates
chr17:5183587-5184263:+
Coord C1 exon
chr17:5183587-5183640
Coord A exon
chr17:5183641-5184116
Coord C2 exon
chr17:5184117-5184263
Length
476 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGT
5' ss Score
9.1
3' ss Seq
TTTGGTTTTGTGTTTTTTAGGCA
3' ss Score
10.36
Exon sequences
Seq C1 exon
AAACACAACTGGAGTCACAGAGGAGGCCCTGAAGGAGTTCAGCATGATGTTCAA
Seq A exon
GTGAGTTGCATGGAAAGCATGCCAGTGGAATACTCGGGAGATATTTCTGGCACGTGGATGGCCTCTGTTCACAGGATTCTCTGGCTGTTCTGTTTGTAGCTCCTTTATTGCCTGCCCAGTTTCGTACTGAGCTGCTCTGATCTCTGCCAGATGGCAGAGCCTCCAGATACACCCACTGCTGGCTGTGCACCGCAGCCATGAGAGCTTTTCCTGGGCATGCTCACTTGTGGGCACAGTTGTGTAGGAACCAAGAGTGAGTTCCAGCTGGGAATACAACCCTTCTTTGGTGTTCTTTAAGCAAAGTAAAGACTGTACGTTTACATTGTTAGGTAGGAAATGTCCATTAATTCAAGCTCACTTCTCCAGAACAGTGCACTGCCCATAAGGTTCTCATTTTCAGCCCGCTGTGTAACTTTGAATGAGTTTCTCAGCAACTTCACATTTAGGAACATGGGTTTTGGTTTTGTGTTTTTTAG
Seq C2 exon
GCACTTTGACAAGGACAAATCTGGACGTCTTAATCACCAGGAGTTTAAGTCTTGCTTGCGCTCCCTTGGCTATGACCTGCCCATGGTTGAGGAAGGAGAGCCTGACCCCGAATTTGAGTCTATTCTTGACACTGTTGATCCCAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004719:ENSGALT00000039770:54
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.263 A=NA C2=0.400
Domain overlap (PFAM):
C1:
PF134991=EF-hand_7=PU(16.0=63.2)
A:
NA
C2:
PF134991=EF-hand_7=FE(65.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAACACAACTGGAGTCACAGAGG
R:
TTGGGATCAACAGTGTCAAGA
Band lengths:
198-674
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]