Special

GgaINT1008313 @ galGal4

Intron Retention

Gene
Description
calpain 13 [Source:HGNC Symbol;Acc:HGNC:16663]
Coordinates
chr3:7777172-7778118:+
Coord C1 exon
chr3:7777172-7777240
Coord A exon
chr3:7777241-7778039
Coord C2 exon
chr3:7778040-7778118
Length
799 bp
Sequences
Splice sites
5' ss Seq
ATGGTATAT
5' ss Score
3.91
3' ss Seq
GCCTTTCTGCTGGTTTTCAGGAT
3' ss Score
10.49
Exon sequences
Seq C1 exon
CTCAATTCAAATGGACAACTCACACTGCAGGAGTTTGGGAGCCTCTGGCGAAGTGTCACCAAGTACATG
Seq A exon
GTATATGGGGTTGCTCTCTCTTCTCTGCCACCATCAGACTCCTGTTGTGTTTTTTTTTTCACCACCAAGGTGCAGGCACTGTGATATCAAAGTAGCATGGGGGGAAATGTTGCCAAGATTGCATCTTTAGTAGGTCAGATTTCCATCCTCTCTTTTTAAAGCTTTCTTTCTTGTTTTAAAAGTCTCTGCTCTGAGAAAAGCATTAGATTTGGAAACAATATGGATGCCAGCTTGGTATTTAGGGCCTCACCTAAGTTTAGGCTGCTTCCCTGAGTCAGGTCCTTCTTCCTCCAGTCTTAATGCAGAAGGGGAAGATTCCTTGAAGCCTCCGAGGTGGGTGGGCTGTGCTTTGTTTTGACCCTCTCAAGACAGTCTGTGGCCAGCTAGGACAATGGGGTGCCAGTTCCCTGCTGAGTAGCAATGCCCTTCCCACTGACAGCACCTCAGCTTTGTTGGGAAAGATGACATTCTTGGATACAGGGACTCCTGGCAGATTTAATGTATTACAGACAATGTGTTTTTGTCAGTGGAAGTACGAGTATTCCTATTGTTGCCTGTGCACACAAACCAGGAAAGTGAGCAAAAGGGCTTCAACCCCAAAGTGGAATTTTGTTATGTTACAATATATTGACTGAGCCTTCTGGAAATGGTCTGTCTTGTCGTGGTCACCCTGTCTTATCTGTTGGCTTCCTTGCAGTGAGTTTATTAAGGAAGGAAAGCATCCTACCTAATTAGATGTAGCAGTACGTTTGGAGAGCGGTGATGAAGGCCTGAAATCTGCCTTTCTGCTGGTTTTCAG
Seq C2 exon
GATCTCTTCAGGAGGGAAGACAGAAATTGTTCTGGATTTCTTGATGTATACGAGCTGAAGAGTGCGATACAGACAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000020084:ENSGALT00000014759:17
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:
PF0003627=EF-hand_1=PD(62.1=78.3),PF134991=EF-hand_7=PU(3.3=8.7)
A:
NA
C2:
PF134991=EF-hand_7=FE(42.6=100)


Main Inclusion Isoform:
NA


Main Skipping Isoform:


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
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]