GgaINT0124399 @ galGal3
Intron Retention
Gene
ENSGALG00000004719 | SPTAN1
Description
NA
Coordinates
chr17:5811403-5812561:+
Coord C1 exon
chr17:5811403-5811550
Coord A exon
chr17:5811551-5812241
Coord C2 exon
chr17:5812242-5812561
Length
691 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
TCACTGTCTTTATCTTTCAGAAC
3' ss Score
12.39
Exon sequences
Seq C1 exon
GGATGGCCACGTCTCGCTGCAGGAGTACATGGCGTTCATGATCAGCAGGGAAACAGAGAACGTGAAATCCAGCGAGGAGATTGAGAGTGCTTTCCGTGCCCTCAGCTCGGAGGGGAAGCCTTACGTGACCAAGGAGGAGCTCTACCAG
Seq A exon
GTAAGTGCCACTTGTGGCCCTCTAGAAAGGAACGGAGGGGAGGTGTTTTGTTCCTAAGTTGTTAATGAAAACGGCACTAATGACTTGGAAGTTCATGTCGCTCAAGTTGAGCCAGTTCTGAACCTGCAGAGGTAACCCCTGCAGCAAACGAAATCATAGTAATAGCTCTGCCCATCTGCTTTCTTGGCCCTATAGAGAAGGATTAACTTAACTGCCAGAGGATTTACTCGAGTAAAGCGAGAGCTCCTCCAGGGCCCAGGAAGGGCTGCATTCACTGTCCCTCTCCTCAGAAACTCATGCTTTCCTATAATTATGTGGGAGACTGGAGGGAGGTGTTTCTCCAAGCAGTGATTTGAAGGAGAAACTTCAGTCTGTGCTTAAACACTGAGAACACAGCCTCCCTCCCACTGCCCTGCCAAGACAGCAAGTTTTTCCTGTCTGAATCAGTTGGCAGAAAAATAAAGAGGTTGCTCTTCTTCCTCATATTTGTTACCTGCTCTGTCTTCTCCATGGTGGGAAGCTGCAGGTCAGACCTCCCAACCTTGAACCAAGCAGGGCAAACAAACAGCTCCTTTCCACGCCGGGTGCAGTTCTGGTGCTTCTGCCCCCAGGGAGGGGGAGTGCAGCTACTCAGTGCCCCACCTGCAGCCCCAGAGAGCCCCTCTCCTCCTTCACTGTCTTTATCTTTCAG
Seq C2 exon
AACCTGACCCGGGAGCAGGCCGACTACTGCATTTCTCACATGAAGCCCTACATGGATGGCAAGGGCAGAGAACTTCCTTCTGCCTACGACTACATAGAATTTACACGTTCACTCTTTGTGAATTGATACAAAACACTAGTACCAAAAGATACAAAGAACATGCTCACGTTTGCTGACTATAAGCTCTGCATGTGTCTCTCTTTGTGCTCTACAATAATCAATGTTACTTTATGATGTAACCTTAAACTGCTTAGCTTAAAACTCTTAGGGAAGACAAACATATTGCAGTGTGCTTCAATAAAAGTTACTGGTCGAACCAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004719:ENSGALT00000007516:56
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.180 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF134991=EF-hand_7=PD(17.3=26.0),PF087265=EFhand_Ca_insen=PU(41.4=58.0)
A:
NA
C2:
PF087265=EFhand_Ca_insen=PD(55.7=92.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCTCGCTGCAGGAGTACATG
R:
AGCACAAAGAGAGACACATGCA
Band lengths:
346-1037
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]