GgaINT0120286 @ galGal3
Intron Retention
Gene
ENSGALG00000013007 | CACNA2D4
Description
NA
Coordinates
chr1:63181631-63185300:-
Coord C1 exon
chr1:63185214-63185300
Coord A exon
chr1:63181703-63185213
Coord C2 exon
chr1:63181631-63181702
Length
3511 bp
Sequences
Splice sites
5' ss Seq
ATAGTGAGT
5' ss Score
6.97
3' ss Seq
GATCTTGTTCACCTTCGCAGCTG
3' ss Score
7.66
Exon sequences
Seq C1 exon
TATAAAGAAGGAAAGAAACTGAAGCCTAAGCCAAACTACAACAGTGTGGATCTCTCAGAAGTGGAATGGGAAGACCAGGATGAAATA
Seq A exon
GTGAGTATCGGAAAATGAATTCAAGCTTTTTGTAGCTCCCTCTTACATAACTTAGCATACCTGTACAGAATGAGGAGGAAGGAAGAGGCACTCCTGTTTTTACTGTGTGTAACTGGCCCTGTGAGAAGCTGGTGGGAAGAGAACAAGGTCAGCGCTCCCTACAGAGTGCTTGCCTTCCTTCTCTGTATGAGCTTTTGTCCCCATGGAACAGAGAGGGGAAAGTACTGGCAGGAGGAAGGAAGAAGTTGGGGAATGCTTTGGGGAATCAGCCTGTGTGTACGTGGCCCATGTGCTGGTGGTAGCTGCTGCACCTCTGGATTCAGCTTAATACAAAGCCAGAAAAGCTTGGGAGTATGGAGGTGTCCCATGAGGTTACTCGTATGTGCAGTATGTGAGATATAGCAGAGCCCACTCAACTAACGGGATTCACAGCAAGGAAGAAGGTGCAATTCGAAAAGAGACTAAAGCTTGCAGTCACTTCTAGTGATAGACAAAGGACATAAGGGATGTATCACTTAAGAAAATGGTTTTCCAGAAAACACCTTATTGCATGCGTGTAACCACTGAAAACAATAGCTGGCCAGAGAGAAATGACTTGAAAATGCCTTTTCTACTCTCTCTCAAGCAAAACTATTAAAAAGTGGTAAACAAGAAACAGCATGCATCTCAACAGCTGCCTGTTGCAGTGTATCAGAACTTGGAATCCGGATACGACAGGAATGCAGAAAGGCTCCTCCATAGCTGGTTTTCTTTCACTCAAAGGAATTAAGAGAGAATAGCTACTTAAGTTACTAAGATAAGAACTGAATTGGGAGTAGGATAGAATTAGCTGTAGGACACATGCTTCTGGACTACAGGGGAGACTGCTGAGATAAGCAGATCTGGTGCTATAGATACCCACTTAGACAGGTGGGACAAAGAGCCCAGCAAGGGGATCACAGCAGCTATTGTGGCCAGTGCAGGGCGAGCACTCAGGGCTGTGCTGGGGGAACACAGAAAGTGGAAGAGTGTGGCAGGCTGAGAAAGGAAATGAGACTGAAGTATAGAATCAAAATCATAGAATCAAGGTTGGAAAAGACAGTTAAGATCATCTAGTTCAACAATCCACCACCAATATTGCCCACTAAACCATATCCTTAAGTACCACATCTACATGTTTAACACAGACAGTAAGGTAAAAATAAGCAGCTTTCTATGCAGTGGACTTGCCTAGATACAGGTTATCTATGGCTTTGTGTGGGTTTGCTGATGTCTTCTAGCAGTTCTGCTCCCATGGTAGTTTTCCCTCTTGCTGGAGCCACTACGGGAGCTACTTCTCTCTACCCAGTATGCTGTTTCACAAATACATACGTATATGTAAATATTTATTTTTATATATAAATATATATACATATGAATTTCCAGGAAATTAAAACTTAGCTGCCATGTTTATTTGGCTACCAGGTTACTGTCTGGCCGAATAACACTGATACCTGAATGCTAATATGCACAGTGTAAGGTTTCAGTCCTTACGTAATCATAATAAAATGTCAAAAGAGGCATGCAAAACAAAGCCACTTTGTGTTCTTCTGCTGCATCCTCCAGAAGAAAGAAAGGTTGCAGCCACTGAGAGTACAGAGACATTCAGTGACGTGAGCAATATCTGCAGTGTGACTTCAGCAAGTCGAGAGTCTCTCAAGATACACCCACTGCAGCAGAAAGCTGCCAACATTTCAACACTCAGATTCACAGCTATGGTATTAGATCAATGACAGACTCAACATCAGCTGCAGTGTTATCTCAGCAACACTGATAAGCAGCAAAATCAGACTGGAAAAATATGCCTAAGTGCTAATGATGTGTAATACAGCCAGCTGCTAAAGAGAAAAAGAGAGGGAACATAGCGCTGTCTGGAAAAGACAAATTGATGTAGAATGGTGCGACTTGCAGCTACAAGTTTGGGTTTGCTTGTAAAGAAATTCTGGGCTATTCTCAGTGTGAGGGGAATGGGGAAGGGTTGTGGGATCATGCCCAGCATCAGGAACTGCCACCCAAACACAGTTTCTTCAGCCTTGATGGAACTTTTGAAGAGGAAATTAGCGTGCAAGGATGTTGTGGCTGAGTGGCAAAACATCTAGATGTTATGAGAGCCCTCAGGAAAACTGTATGTCTATTGGTTTGAAACTACGTGAGTGGATGGGGAAAAGGAATCAGCAGCACTCACTGCCTGTGACAGTGACAGCACGGATCCATTGCTCCTGAGATCTCACACACCAGGACTGTGGCTGCTTTTGAATATTCAGAGCAGGAGAAGCAATGGGGAAGAAGCAGCAAGATTGGACTGTGGCACCAACCTACAGCCACTGCCACCCCAGGTGGGGCACAGCAGGTAGCCTGCCTATGGACAGGCTGGGGCTGAGGAGATCTGAGGTCTCATTCCCACTGATTTACTTCTCCACTGCCCCACGGTGCAGCGAGGGATGGCTGACATTCAAGAAGACATGGATGAAACAACAACAACCAAACTGAACCCAGGACCCAGAGAAATTGCTTCAGGCTGTCAGACCAGAACAGAGTATGCTGTGGCTCTGGCAGGAGGTCAAGCTCTCTTAGCTAGCAAGGAGTTACGGTACCAGTCAATGTTTGGATTTCCAAGACCCGGACTTTGGAAAACGCAAGCTTTATATTCTAAGCCTGTAAATAACCCACATCAAACAGCCATAATAAATAGAGCTGTGGTCTTGTAAAGCAAATGCAGTCGAGTCTGGCCAGCACCTGAATGGAAGCCTGTCTCTGGAAGTACGGAAGCAATTTGTGTGAATGAATAAGCTACTTCCCACCTTTTTTTTTCTACCCAGGCTGAAGCAACAGGCTGATATGCTCTGGCAGGCTGAACCTAATGTCAAATCCTCTGCACTTGTGGAAAAATTTCCTGGCTCTTTCTCGCAAGAGGCTGGGAGTCACTGTGAAAATTATATTATGTCTTTGGAACCTGGATCGAATGAAGTGGGCTTCGCGCTGCCTCCCCAGCTATCACACAGCCTTGCTTTGCTGTGTTAAACAGCTGCTTTGTTGCTCTCAGAAGTGGTACTCTATACAGTCTATAATTTATAAATCAGTTTAAAGAAATGCCAAAGAGCTTTGTAGTCAGCCTGAGGGAGCCGGTGGGATTCTCAGGTGTCTCCTCTTTCAGGCTCTCAGAGCATGGCGCTAATGACATTCTGGCTGCCAAACGATGAAGGCTGAAACGTGGACTGACAGTTTCATAGCTTCCAGATCCTTTCCTTTAGCTCAAAAGACATATCAACAAACTTTCAGCATAAGCCATTTTTATTCTGTGTCACTGATTGGACAAGGATCCTGACCACCAAGAACAGGTTTTCGGTTTAAAAGAAGAAAAACAAGCTGTGGGGGGAAAAAAATGACACCCACTCTTTCCTGTCAGGCTCTGTATGTTAACAATGAGCAGCTCTATTAATTCCCATCCTGCTCCACCCAGAGATGCTAATGCTGATCTTGTTCACCTTCGCAG
Seq C2 exon
CTGAGAACTGCCATGATCAATGGGGAAACGGGCTACCTCTCCATGGATGTGAAGGTCCCCGTGGATAAAGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013007:ENSGALT00000037501:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.052 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0274313=Cache_1=PD(6.0=20.7)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion 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]