GgaINT1009543 @ galGal4
Intron Retention
Gene
ENSGALG00000011645 | CLASP1
Description
cytoplasmic linker associated protein 1 [Source:HGNC Symbol;Acc:HGNC:17088]
Coordinates
chr7:25623970-25625386:-
Coord C1 exon
chr7:25625323-25625386
Coord A exon
chr7:25624134-25625322
Coord C2 exon
chr7:25623970-25624133
Length
1189 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
GACACTTGTTTTGCTTATAGGTC
3' ss Score
8.58
Exon sequences
Seq C1 exon
CCGAGTGGAATTGAAAAGGCTGTGTGAAATATTTACTCGGATGTTTGCTGACCCTCACAGCAAG
Seq A exon
GTAAGATCACAAAGACTGTGTCATTCTCTTGAATTACCATGTGTCTACATTTGTGTATTCTTCAAAGATGAGTGTTTTGTATTTCTACCCCTGCCATCTGCTGGGGAAAGCTGGCATTTATAAACCTCAAATCTGTTTTACCATGAAAGTATGGATCCCAGACTGTCTGCTGATGCTAGGAACTGATTACCTTGTGCTTCCCAAGAAACTGAATGCCTTTTGGCTGTCAACTCCTCAAGTAATTATAGTCTGGACCAGCTGGCCAGCAGATCACATCTAGTGTGACAGTTCCTACCTGTAAGGTGTTTTTTGACTCTCAAAAATTCAGTCCCTTGTAGAAAAGGCATAGATATAGTTACTTGTTTGCAAATATTTCCAATGTATAAATAAGGTGATAGTTTATTATGTACTTACTGAAGTATGTTTTCCATGACAGTGATTCTCTTTTTCACTGCTTTTATCGAACTATTGCTAAAAACTAATCAGTTTGAAGTGCAAATTATAATCACAGAATTGCTGCAGTATAACTGAAGTCAGACTTCAGTCCTTTATTGCAAAATCAGGGATTTTTCTACCCACTGTCCCTGCTGTTACTAAACACTGTTTGGGAGGGCATATGGGATCAGAGTCTCAGAGGTTAGAATAAACTGGGGAAGTGTGGGAAAAACTTGATAGGGGTTGGGGAATGTTATAGAACTATCTAAAATCATACAGTTCTCTTGACGTGTTGATTTTAAGGGTATTGCTTTTCATGAACTGGACCTGATGCAAGGTGTAAAATGTTTTAAATAACTCTATTGAGAAGATATTTTGTACTAAGAAAATGTAAACTTGGAATGAATGCATCTTTAATGTTGACAAACTGCATATGAATGATCATGTTTGATCACTGTGTGCTAACAAGTTGTTTGTTTTGTTGCATGGCCTGCTTTGCTGTGGAATTCACAACAGAGAGTAAGTGTATTCTGCTCCTCTTCCTTCATTTGTTTCATGTGGTATTTTAATACTGCACATTATATATGTCTGTTGTCTGATTCTTAATTTCAAAGCAATGAGGTCACTAAAATCATCCATTCATGAAACTGTCTGTAACGATAATTCTGAAACTTGGGTTTTTAAAACTCTCCACTTTGATTAGTTTTTATTTGAAGCATAGCCTTCCTTTTTGTGACACTTGTTTTGCTTATAG
Seq C2 exon
GTCTTCAGCATGTTTCTGGAAACCCTGGTTGATTTCATCATCATTCACAAAGATGACTTGCAGGATTGGCTTTTTGTTCTCCTGACACAGTTGCTGAAGAAAATGGGAGCAGATTTGCTGGGGTCTGTGCAGGCAAAGGTTCAGAAAGCTCTGGATGTCACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011645:ENSGALT00000019030:26
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (disopred):
C1=0.000 A=NA C2=0.018
Domain overlap (PFAM):
C1:
PF123483=CLASP_N=FE(10.7=100),PF116403=TAN=FE(29.2=100)
A:
NA
C2:
PF123483=CLASP_N=FE(23.3=100),PF116403=TAN=PD(17.8=23.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCGAGTGGAATTGAAAAGGCTG
R:
TGGTGACATCCAGAGCTTTCTG
Band lengths:
227-1416
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]