DreINT0011857 @ danRer10
Intron Retention
Gene
ENSDARG00000020187 | GCA
Description
grancalcin, EF-hand calcium binding protein [Source:HGNC Symbol;Acc:HGNC:15990]
Coordinates
chr6:13864651-13866231:-
Coord C1 exon
chr6:13866118-13866231
Coord A exon
chr6:13864710-13866117
Coord C2 exon
chr6:13864651-13864709
Length
1408 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
TTGACTTGGTTTATCCTCAGACC
3' ss Score
7.42
Exon sequences
Seq C1 exon
GGTATCGGGTTAGCCCACGGGTATTGGACGCCATTGTCAAACGCTACAGCAGGTCAGGAAAGATCTACTTTGATGACTATGTGGCGTGTTGTGTGAAGCTAAAAGCACTTACAG
Seq A exon
GTGAGTGAGGCGTTTAATAAAAGGTTTCAGTACCGATTCATACTATATATTGTTCGAATTATTATACAAGGATGTAACGATTGAAAACGGTGGATAATCGATTCAATTATGTGACGAAAATCTACCAACATTTCTACCGACTTGAACTAATCGTGATACATTTTTTCGCTTTTCACATTTTTGAAATGGCAGTTTGGTTATGGCAGAAAATGTATCATTCTGCAAAAACCAAAAATGTGCAGCATCTAAGAAAAAATGAAAGGGTTCTACACCTTAAATTGTAATAGGATTAGTATCGTGAATTGTGAGTCAGGTGAATCGTTACATCCCTATACGAAGTATATTGCTAAAAGGATTAGTTCACTCAAAAATAAGAATTCTGTTAGTAATTACTCGCCCTGATGTTGTTCCAATCCCCTGAGACCTTCGTTCATCTTCAGAACACAAATGAAGATACTTTAGAGGAAAACCAAGAGCTCCTTCATCCTCCAGAGACGACACAGAGATGTTCAAAGTCCAGTATAGGAACCAAAAACATGGTCAACAAGAGTTTTCTTGGAGCTTCGTATGATTACAGTTGAACCGTTAAAGTCACAAGGAAAGTTTTTGGCTCCTTTTCTGGACTTTGAACATCTCTGGACCATTGCTGTCTATGGAGGAAGAGAGGTGAAGTGAAGTTTTATAAAGTAATTTCGAGAGGAGCACGTGCTTATGATTGATCACAGCTGGTCACGCATTAACTAACGCATGATTCACCAATCAGATGATTCCTAACTCACTATAAATAACCAGAGTTTCTTACTTCTGTCATCTTCGCCCTGAAGAATCTGCCCTTCCACCTCTACTCCTCCACCTTTCCTTTATAAGGTGGCACGGTTGCTTAGTGGTTAACACTGTTGCCTCACAGCAAGAACGTCACTGGTTCAAATCCTCCTTTACAGGCCAGTTGTCGTTTCTGAGTTTACATGTTCTCCCGGTGCTCGCGTGGGGTTTCCTCCCACAGTCCAAAAACATGCGTCACAAGTGAATTCATCAATCTAAGTTAGCACTATAGTCAAGCTCTTAATCAGCAGTATATCTCTAAAAAGCAATTTATAATCCCTCATCAGCCTACAGACCTACCTAAGCTCAAACTCCTCTCTTGCCCTGCAAAAAGGAGGGAGCCTAGGACTCAAGGATATTGTGAGCTCAGGGCTCTCTCCTGGGACAGCATGCCAAACAAGCTTTATAATCAATCATCAGCTAAGTGTGAACTCTTGAAATATCTTGGTTTGAGTTCTGAAGATGAACAAAGGTGTAATGTGATTGGAACGGCATGAGGGTAAGTAATTGATAGCAGAATTTTCATTTAAATACCATACTTTACTTTAAATACTTTTCTTAAAATCTTGACTTGGTTTATCCTCAG
Seq C2 exon
ACCACTTCAGGAAGAGAGATACTATGCAGCAGGGAATGGTGAACTTCCAGTATGATGAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000020187:ENSDART00000004656:6
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:
PF134991=EF-hand_7=PD(50.0=76.9)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
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]