DreINT0149865 @ danRer10
Intron Retention
Gene
ENSDARG00000102362 | slc25a12
Description
solute carrier family 25 (aspartate/glutamate carrier), member 12 [Source:ZFIN;Acc:ZDB-GENE-031006-11]
Coordinates
chr6:3815986-3818099:-
Coord C1 exon
chr6:3817954-3818099
Coord A exon
chr6:3816102-3817953
Coord C2 exon
chr6:3815986-3816101
Length
1852 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGA
5' ss Score
6.04
3' ss Seq
TCTCTACTGTTTGTGTTCAGGCT
3' ss Score
8.98
Exon sequences
Seq C1 exon
TATGCCAGTGTGGTGGATAAGGATGGAGAGCGGTACATGACACCCATTGACTTCGTGCAGAGGTATTTGGGCCTCCACACGCAGCTCCACTTCAACCCTAAAACTGTGCATCTGCTTGCCGGAGTGGCTGACACCACAAAAGATGG
Seq A exon
GTGAGACATCTCCTATCTCCCATCTGTTTTCTAGTTGTGTTTTTTTCTGGACTGAACCCTGAACCTTTAGCTCAGTTTATATGTTAAAGTTCATTCATTTCAAAAAGATTTTGCATAACTTTTTTTGTATAATAATTATAAGACGTACATTACATATTTACTCCAGTACATTTTGTTAACTAGAACTTGTCACAGCATTTATATTCTGCTTCTCTCTGATAATTCGAAGTGCTTATTTCATCCTCATTTTGGATGAAATTGTCTGCTTAATAAATATATGTAAAGTTGGCTTCTACAAGATTTTAGCATTTATTTGTTTAAAAATCTATTACTAATATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTGTCTATCTGTCTGTCTGTCTGTCTGTCTAACTACCTACCTATCTATAATTTGCATCAGATATAAATATTCACCTAATAAATATAAATATTTTCTCATGTATATAAATATATTTATGAGATATATGAGATATTATATATATTAGGAATACTCCGATCACAATATTTGTAGCCGATATCGAGTAACAATTCCTTGTCATGGTGATCAGCTGATACAGAGTACCGATTCTGACGCTTTATAATACTTAAGTGGAGATTTCTCCTTACCTAGGAGAATAAATCAAGGATGCTGCATATAAACCCTTAAACACGTCTCTTATAACTATTTAGGTATGAACATTTCAAAAAAATCGGTAAGAAAAATGATTAACAATGCAATTTGGAAACAACATATCTCAATAAAGAAAAAGTTTGGAGCTCAAATTTGACCTATAAGAAGTTATAGTGCAAACCTATGAATACATTACTTTTTTGCTAAAAGAAAATAGGTCTATAAACTACTGTTTTATTGCAATAAGTAAATAATAATAAGTTATATTATTAAATATTCATCCTAAAAAAAATAAATAAATAAATAAAAAAAAAAAAAAAAAAAATATATATATATATATATATATATATATATATATGTGTATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATTGTGATCGGTTAATGAGATCGGCCAGATCCGCGAGTACCGATCGAGTCATAAAATGTGATTATCAGCCGATGCCGATTAATCAGAGCATCCCTAATATATATATATATATATATATATATATATATATATATATATATATATATTAGAAAATATTTTTATTTGTGAAGTGAATTCTTACATAAAATTTGTATTAGATATAAAATATACACAGTACACACACACATTTCAAGTGAATATTTATTTTTATAAAAATACAAATGCATGCAAATATGTGAGAATGTTTATTTATATTTAGATATAAAATATGTATACAATACATACATTTAGATATCTATGCAGATAACAGCTTTGTGAAGTCTTTATTATTATATATGTGTGCGCATTACATATAAATAATAAATACATATAATACACACATGTCTTATGTCAAAACAAACTTTTATTTTGGATTTAATTAATCGCGATTAATACTAGCTCAGCATTATTGTTATATTTTAAAGAATTGTAAAAATATTTAAATGTAATTTTAATAATTGTATAAAGCTGTATTTTTATTTAATTCAGTCATTATTCAATTTGTTTTAAAATGTGAGTAATTTCTTGGCATCCTTGCTAAATAAAATGTTTTAAATGGTGCTGTTTGTAGTTTCAAGTAAAAAATAAATTGTGTAAAATGTTTTAAACAAGGGTTGTTTTGTTGTAACGTCTCTACTGTTTGTGTTCAG
Seq C2 exon
GCTGATCTCGTACCAGGAGTTTCTGGCCTTTGAGTCAGTGCTGTGTATGCCTGATGCCCTCTTCATTGTGGCCTTCCAGCTGTTTGATAAAACTGGAACTGGAGATGTGTCCTTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000102362:ENSDART00000167753:1
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=0.000
Domain overlap (PFAM):
C1:
PF134991=EF-hand_7=PU(80.7=93.9)
A:
NA
C2:
PF134991=EF-hand_7=PD(17.5=25.0),PF134051=EF-hand_6=PU(50.0=47.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TATGCCAGTGTGGTGGATAAGGA
R:
CGAAGGACACATCTCCAGTTCC
Band lengths:
262-2114
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]