GgaINT0132730 @ galGal4
Intron Retention
Gene
ENSGALG00000002587 | CRCP
Description
CGRP receptor component [Source:HGNC Symbol;Acc:HGNC:17888]
Coordinates
chr19:4960947-4962202:+
Coord C1 exon
chr19:4960947-4961078
Coord A exon
chr19:4961079-4962103
Coord C2 exon
chr19:4962104-4962202
Length
1025 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATA
5' ss Score
8.49
3' ss Seq
TTCTGTTTGCTTTTTTCCAGGTG
3' ss Score
11.58
Exon sequences
Seq C1 exon
TTGCAGTGCCTGCAGCTATATTGGTCACGGCTTTTTACTGCTCTTCAAGTTACTGATTCCTTTAAAACTATGGACCTCTTTCTGTTTGCTCCTCTTTTCCTTGATGATGTAGCTAACATTCTCTTTATCAAG
Seq A exon
GTAATATTTTACACAGAAAGCAGTGATTGAAAGCAGTGTTCAAGGCTGATACATTTAATGTTCTATGCCTGAATTGCTTTTGTGAGGTTGGTGTTGTCTTTTGATGTCTCAGTGTCAGCAGTCATACTGTCTGCAGATAGCTACTCAATGCACAGTTTCAGCTTTAGCTTTTAAGTGTTGACTGCTTGTGCTTAATGGACACACAAAGTAAATGCAGGGCTCCTAGCTGCTAACGTTGGTGTTTCTCACGTCTATAAATGTTTGCATTCTTGCTTAAGCTTATAATTTCATTGGAACTTGAATTAAGTGAGTTACCAAGAAGAAGCAGTAAGAAGCGATGTGTTACTGTGCTGTGGGTATTGGCTCTGGATATTCTGTAAAGCACGGGGAAAACATCTGAATAAATTTCAGCCAGATGTGGTTTAATATGGAATCAAGCAGTAACTGTGGGGCTTTCTCAGTATTTTGCTGCTTATCTGACTGTGACACATAAAGAAGTTGTGGTGTTGCAGCAGATCTGACAGTTGGAAAAATCAAAACGTTTTCCTTACATTCAGGTTTATCCTCTGGATCTCACTCACTGCATCATAAATGTGAAGGTGTTGCTATTACATCTACAGGCATTTTCTTCAAGCATCTCACTTGTATTTAAATAGGAGCTGTGTGCCATCACAGCAGTGTTTGTACAGCAGTGTATGTACCCCACTCTGTTCAGGACATGGGATAAGGCAAACAGAATAGATCCCTCCTGCCAGTTTCTCCCTTGGGGCTCTTGGATAACATGTAATAAGTGCTGGGAGTCTGTTTGCTCTTGGTTTTATGAATTTACACATCTCCTTATTCACCTTTCTGTTGCCAGAATATTCTTTCTTTTTACCTGCTGGTGCAGTCGGCATAGAAGCAATCCTTTTTTAAATTTCATTTGCTTGGTAGGATTTTGGGTTGTTTGTTTGTTTTCCCAATGTAATATGTTGAGGTAAAACGCTCTCAAATGACTGCAGGCTTTTCTGTTTGCTTTTTTCCAG
Seq C2 exon
GTGTTCCAGCTACTCACTGATCTTAAGCAGCAGCGCAAAGAGAGTGGAAAAAGCAAGCAGAGCTCTGGTCAGCAGAATCTGAACACAATCATGTATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002587:ENSGALT00000004075:1
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=0.303
Domain overlap (PFAM):
C1:
PF0387411=RNA_pol_Rpb4=PU(3.5=9.1)
A:
NA
C2:
PF0387411=RNA_pol_Rpb4=FE(28.1=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:
CAGTGCCTGCAGCTATATTGGT
R:
ACATGATTGTGTTCAGATTCTGCTG
Band lengths:
223-1248
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]