BtaINT0030500 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021994 | CACNA2D4
Description
calcium channel, voltage-dependent, alpha 2/delta subunit 4 [Source:HGNC Symbol;Acc:HGNC:20202]
Coordinates
chr5:108774024-108779381:-
Coord C1 exon
chr5:108779310-108779381
Coord A exon
chr5:108774086-108779309
Coord C2 exon
chr5:108774024-108774085
Length
5224 bp
Sequences
Splice sites
5' ss Seq
GGGGTAAGC
5' ss Score
7.79
3' ss Seq
TTCCCTGGTGCCTCTTTCAGAAG
3' ss Score
9.22
Exon sequences
Seq C1 exon
CTGAGAACAGCCATGATCAACGGGGAGACCGGGTCTCTCTCCATGGATGTGAAAGTCCCGCTGGACAGAGGG
Seq A exon
GTAAGCGCTCCAGGAAAAGGCTGAGGTCTGGTCCCAGGATGTGGCATCCTGGTTAATTAAGGTTGGCGGTGTTGACAAGGGACCTGGCTGAATCAGAGTGTAAATCTTGAGAACTTGCTGGAGCCTGGAGGGCCCGAGTGAGGGACCCAGCCCAGCCAGCATCAGCCCCACGGAGCTTTGGCCAGAGAGTGACCCCTCTCCAGGGCTTGCCTCTCAGGGGCCTAGGGTGAAGCAGCAGCAAGCCCAGCCCTTCACGGGTCTTCTTTCTGCCTTGCGTGGATGCTAAGTTGCTCAGTTGTATCCGACTCTTTGCGACCTTCCCAGACAAGAATACTGGGAGTGGGTTGCCACGCCTTCCTCCAGGGAATCTTCCCAACCCGGGAGTCAAACCTGCGTCTCTTATGTCTCCTACATTGGCAGGTGTGTTCTTTACCACCAGTGTCACCTGGGAAGCCCTCTTTCTGCCTTACCTGCCTGCTATGTGGCCCTTTTCTCGTTTATGGTGGAAAGGGGGAAGGTGTTAGTCACTCAGTCGTGTTCAACTCTCTGCAATCCTATGGACTGTAGCCTTCCAGGCTCCGCTGTCCATGGAATTCTCCAGGCAAGAATACTGGAGTGGGTTGTCGTTCCCTTCTCCAGGGGATCTTCCCAATCCAGGGATCAAACCCAGGTCTCCTGCTTTGCAGGCAGATTCTTTACTGTCTGAGACACCAGGGAAGCCCCTGGAAACAGGGAAAGTGACAGTTAATTTTGCAAACTGTTAGCAGCTCTTGTAAAGCATGTCATCTGGGAAGAAGTTGAAAATTACTGCTGTTCCTCAGAGCTGATTTTCAGGACTGGGTCTACCCAGTGATGCCTTCCTGTCCCCACAGACTCGCTTGTCACTTACAAGGGATGGCTTCCTCTTTCAGTGTAAAAGGCCCCACTGGCTTGCACTGACTCTGCATTGTCCCTTGACATATTTACAAATGTCACCTCTTCCCTCCCACTACTGCTGCCCTTTCGCCTCCGAGGGAAGAACATGGGCATCCGTCGGCAACAATTAGACCCAGGTTCTTTCACAGACACGGACTTTCCTGGAAGCCAAACACGGAAGCCCTGGGAAGGAAAGTAACTCTCTGCATTCCTTTTAGATGTGCAGGCTGGTTCTCACTGGGACCTGCGTCAGTTCTTTGGCCTCTGCCTGTTGTTTTCAAGCTCTGGACTGAGAGGGCCTCCCTCGGGCAGACCGGTCAGCATCTCTGATGACCCATCAGGCCCAGCAGGTCCTTCTCGTGAGCCAGAAGAGGCAGGGGTGGCTTCCAGGCACCTCCACCCTTATCTCAACCAGACCTCCACTCACAGGCGTTGGGGTGCTCCCACCTCAAAAAGAGGAGAAATAAAGACAGTTTCAAATAAAGGAGATCAAAGTTCATCCCTAAGAGAAATACTTAAGGAAATTCCTCAGGCAGAAGAAAAATGACACAGATGGAAACTTAGATCAACACAAAGAGAAATGAGCAGCATTGGAAACGATGAATGCGTGGGTTAGGATAAGATTTCATTCGTTCTTTTAACTTCTCAAAAAGACAACGGTTTAAAGGGAAAATGTTGACATTGTGTTGTGGGGTTTGTAATGTGAGCAAATGTAAGATAACAGCCGCACGGAGGGAAGTTACCCCATCGCATTAACACACGGAAGAAACCAGCACGTGGCTACCCCAAAGCATGCTGAACACACTTGACAAATCTTCACTGGAAGCAGAAGGAAACATCTGCGGTCTGATTAAGAAAAAACCGTGTGTGGAAAAGTTCACTTCCAGTGGTGAATGACTGAACACTTTCTGAGACTGTGAACTTGGTAAGGTGTCTGGTTTCACCACTTGCGTTCAACATTGCTGGGGGCCTGGCAAGAACCTGTCTTTGTAATAAGGCCGGGAAACAAAACAAAAGCCATGAACAGTAGAGAGGAGAGAGTAAAGCTATCTTCGTTCACAGCAAGATAATTGTTCACATAGAAAATCCCCCGAATTTGCAAAACAGCTGCTGGAACTAATAGATAAATTTAGCCAGTTCACAGAACACAGAGTCACTGTTATAAAAATCAATTATACTTTTATATATAGCCAGAAACATTTGCAAAATGAAAATACTTTTGATTTCCAATTTCCACAGCACAAATAGGAATAAATCTTACATATATGACCTCTACACTGAAAGCTACGTAACACTGCAGAAAGCATGTCAAATAAAAAATTAAATAAATAGGAACGATAACCATGTTTATGGATTGTAAGATCAATACTCCTAAGATGTCTATTCTCCCAAAATTAACCTATAGATTCACTATAATCCCAATAAAAAAATCTAACAGACTTCCAGACATAGAAGAAGGTGATTTTAAAATTTATATGAATATGCAATGTCTCCTTCAGTCCATTCTGAAGGAGATCAGCCCTGGGATTTCTTTGGAAGGAATGATGCTAAAGCTGAAACTCCAGTACTTTGGCCATCTCATGCGAAGAGTTGACTCATTGGAAAAGACTCTGATGCTGGGAGGGATTGGGGGCAGGAGGAGAAGGGGACGACAGAGGATGAGATGGCTGGATGGCATCACTGACTCGATGGACGTGAGTGTGAGTGAACTCCGGGAGTTGGTGATAGACAGGGAGGCCTGGTGTGCTGCAATTCATGGGGTTGCAAAGAGTCGGACACGACTGAGCGACTGATCTGATGAATATGCAAAAGACCTAACATGGCCAAAACTATGTTGAAAAAGAAGGACAAATTCTTTTTGTTGAATGAGATGGATGATTCACAGTATCTGATTTCAAAGCTTACTTCAAAGCTGCAGTAACCAAGCAGAGTGGTATTGACATGTGAATAGACAAATGGATCCATGGAACAGAGACTACAAAAATAAAGCACACAGAAAAACACTCAAGTCGCCAGCATATTTTCGATAAAGACACCTTGGCAAATCAATGGAGAAAGGAAAGACTTTTCAACAAATGGTGCCGGAACAATTGAATAAATGTCTCAAAAGTCACTGAGATATACTCATACCATACACAAAAATTAATTTGAATGCCGCTCAATTACAAAGCTCTCAACGTACAAGCTAAAACTATAAGGCTTCTAGAAGAAAATGCAGATGAAAACTCTTTACAACCTGAGGTTATGTAGTTTTCTTTGACAAAATACCAAAGGCATTAAACATAAAATAACATTTGAAAAATTGAATTTCATCAAAAAACAATTCTGTTCATCCAGAGACACAATTAAGAAAATGAAAATCCAGACACAGACTGTGTCCAGACCATAAAGAATTTCTCCAGATTACTAACAAAAAGTCTAACAATGTAATTTTTAAAATGTGGGCAAGACACTTTAGCAGACCTTTTAGAAATGAAGAGACATGACCAACAAGCCCACGAAAAGCCCAACCAGCAACTTTAGTTGTCAGGGAAATGCAAATTAAAACTACTTCCATACCCTCTAACATAACTACAATTTGAAAGACCGATAATTCTGGCAAAGATGTGGAGACATTGGAGTTCATACATTGCTAGTGGAAGTATAACAAAATAACTTGGGGAAGTTGGCAGTGTTTTATAAAGGCAAACATAATTTGCATATTTTGCAAAGGAATTCCTTCCCTGGTACTTACCAAGAGAAATGAAGACACACGTCCACAAGAAGAACGCTCACAGCAGCTTTATTCAAAACAGCCCTAAACTGGAAACACCCCGGATGGCCACGCATGAAGGGCAGACCTAGCAGTACACCATGGTTTGCTGTCCTTGAAGTACTTACTCCTCGGAGGGAAAGGAACAGAGCACTGATGCCCCAACAACACGGGTGGGTCTCAGGGACACTCCGTGGAGCAGAAGTGGCTGCAAAAGGGCTCGTGCTGTGAGAACAGCAAACCGAAGCTGTGGGGATGGAGGTCAGGGCAGAGCTCGCCCAGGAAGGCGGGGGCTGACCGGAAGAAGACAGAGCGATCGTGGGGGCTGCACACAATCCCTATCTCAACCCAGGAGGTAATCCCACAGCAGCATGTGTTTATCAAAACTGATGAAATGATACATCTAGATGTGCGCATTTCAACTTTTTATTCAATTAAAAAAAAAGAGAAAGGAAAAAAATGTTAATGCTCCCCAGTTTCAGACTCAAACCAGCCCCACTTGGAGCCCATCAGTGCCCTGGCTGGCCCCCAGCTGCCCCCATGGCTCCCAGACCTCCCACCCAACTGGGAGAGGGTCTGCCTGAAGCAGAGAGGGCCAGAGGGCATCAGGCAGGATGAGGCCCGAGCTGGGAACTGTCCTTTCTCGTTTGGTCCACTGCTGGTTTCCTATTGAAACAAACCTTTTTTGCTACCTTCTCGCTCTGTGTCCCATCCAACATCTTACTCCAGTTTCCAACCCAGAAGAAAAGCCTGAAAAAAAGGCAAAGGGGATAAGGACAGCCCCATGGCCAAGTGCAGTGTGCGGCTTTCCCAGAGGCATCCAAGTGTGTGCAGATGGTACAGCCTATGGGGCACCAGAGCCCAAGTCAACCTTGCCCTTCTCGCCCACTATAAACACCCTCACCACCTCCCAGCAGCCCACTGGGGATGGTCTGATTTACAAACGGAATGCGATGCCCAAGAATGTGAGGTCACTCACCCAAGCTCACCAGCCCGCGAATGACCAGTGGGGCTTAGACCAGGGCTGTATGATGCCTGTGCCTGTCTTAGCTGCAGTGCATACCCCCCGATGCCCTGACTTGTGCAAATTCAACTCAGTTCAACATGGCAGCTTTGAAAGGAAAGAGAAGCTGTGAAAGGCAGCAAGGCCTGGAGGGGTCTGGACTCCAGAGGCGAGCGGTTCCTGGTGGGAAGTACAAGTGTGAGCTCAGCCAGCAGCCTGCGCTGGTCCCTCCTGGAGCACGGCCACCGGCCAGCATAGGGGCCACCAGCCAGCCAGGCTTTCTAGGTTTCCATTTCTGTTAATTGACAGTAACTGAGATTTCAAATTTCCATTCCTGAGTGGTACACATGGTAACTCATGGCCCCATAGGGACAGTGCAGTCTGGACTATGGCCCTCAGTCAGGCACACCTTCCCCAGGGCTGCAGTGTCCCAAAGGGAAAAGGCCTTGGTGGGGGGGCGGGCAGGGCGGGGCACCAGGCGGCACATGGGGAAGGGGGGAAGGGTGGTTGGCACTCCCTCCCCAGCCGGCACACTTCCCTGGTGCCTCTTTCAG
Seq C2 exon
AAGCGAGTTCTTTTCTTGACCAACGACTACTTCTTCACGGACATCAGTGACACACCTTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021994:ENSBTAT00000037708:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
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]