RnoINT0137600 @ rn6
Intron Retention
Gene
ENSRNOG00000015262 | Slc34a1
Description
solute carrier family 34 member 1 [Source:RGD Symbol;Acc:3708]
Coordinates
chr17:9747752-9749708:-
Coord C1 exon
chr17:9749584-9749708
Coord A exon
chr17:9748741-9749583
Coord C2 exon
chr17:9747752-9748740
Length
843 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAT
5' ss Score
7.79
3' ss Seq
TTCCGGCTTCTCTCCTGCAGATT
3' ss Score
12.35
Exon sequences
Seq C1 exon
GCCTGGGTGTGATCAGTATTGAGCGGGCCTACCCTCTCACCCTGGGCTCCAACATTGGTACCACCACTACAGCCATCCTGGCAGCACTGGCCAGCCCCAGGGAGAAGCTCTCCAGCTCCTTTCAG
Seq A exon
GTACATGGGGAGAACAGTCAGTCTGTGGTAGTAGAGGGCTGGGATGGAGAGGACGAAGGATGTAACAATGTATGATCAGCATCAATGCTCACTAAGGTTACTCACTCCACTCACTGGAAACCAGGGTCTAAAAGCGCAGTCACTGCTACACTGTATCAGTCAACAGCAACAAATCAGGGTCACGCCCTGGCAGTGTGCTGTGGGGGGCCCAGACTTGGGGGATCACAGCTGCATAGAACAGGATGGTAAGCAGATGGCACAGGGGGAAACTGACTGAGGAGCAGACCAGCTGACAAGGGGCTGACCAATTAAAACCATCGGAATGGGCAAGACAAAGAAAACTTAATCGGGGGCTGGGGACTTAGCTCAGTGGTAGAGCGCTTACCTAGGAAGCGCAAGGCCCTGGGTTCGGTCCCCAGCTCCGAAAAAAAGAACCAAAAAAAAAAAAAAAAAAAAGAAAACTTAATCGTTAGTGGCTGCTAAAGGCAGACGTGGCAGTACATGCCTGGAATCCCAGCACTTGGTAGGAAAATGGCTAAAAGTCCAAAGTCAGCCTGGTCTACTTAGCAAGATCCTGTGTCAGAAAGACATTTTAGCAGCTGGGTCATAGTTGAGGAGTTACTGGGGGCAGCTAATAGGACACACGTGGAAGGTTCGGGGCAGTTGTCATTTACCAGTTACAGTTCAGCAACACAATAGTTTAATAACTAGTGTGGAGTCTTCTGGAACCACATCAGCCCGAAGAGGTTTCCTCCTGCTACCCAGGTCATGTGGGGCCTCTACTATGTAGCCCTGCTGGGCTCACAAGGCGGTGCCTGATCTCTTCCGGCTTCTCTCCTGCAG
Seq C2 exon
ATTGCCCTCTGCCACTTCTTCTTCAACATCTCGGGCATCCTCCTGTGGTACCCGCTGCCCTGCACACGTCTGCCCATCCGCATGGCCAAGGCACTGGGCAAACGCACTGCCAAGTACCGCTGGTTTGCCGTCCTCTACCTCCTCGTGTGCTTCCTGCTCCTGCCCTCACTGGTGTTTGGCATTTCTATGGCAGGCTGGCAGGCTATGGTCGGTGTGGGCACACCCTTTGGGGCCCTGCTCGCCTTCGTGGTGCTTGTTAACGTCCTGCAGAGTCGAAGTCCCGGGCACCTCCCCAAGTGGCTGCAGACATGGGACTTCCTACCCCGCTGGATGCACTCTCTGCAGCCCCTGGATGGCCTTATCACAAGAGCCACCTTGTGCTATGCCAGGCCCGAGCCCCGTTCACCCCAACTTCCCCCCAGAGTCTTCCTGGAGGAGCTTCCTCCTGCCACGCCCTCTCCCCGCCTGGCACTGCCCGCTCACCACAATGCCACCCGGCTCTAGGCTGCAGGTCCAGACTATTGCCTGGAGCGAGGGACGGGATTTTTACAGAGCCCACAGTAGAAAGGCACAGCATGTTTGTGAGTGTGTGTGCATGCATGTAGATGCATGTCACTTGAGGTACATGATTTTGTGCCACCCTTGGGTACCTGTCCCTACTCAGGGCCACAGCGGGGTGGGCTTTTTTTGCAATTAAGAAGCAGTGTGCACAAATACATGCTAGGTCCTGAGCCTTTGTGGCCATCAGGACAGGAGTATGCGAGTGCATGGTGTGGGTACAGGGGATGCAGATGCATGAGGAGCCCCCAAAATTTTCTGGGAAGAGTCGGCTATGCCCTCTCACCTTCTCACTACCCTTGTCCCAACAGGAGAGGCAGAAGAGCAGCTGGCCTTCTGTATACATGAGCCTTTCCTCTGCCAATTCTGCTAACTGTGCATAGAAAAAGTTTTAAAAGTTGCATCTGTCCTGATCATATATGAGCTTTTTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015262:ENSRNOT00000033749:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.024
Domain overlap (PFAM):
C1:
PF0269010=Na_Pi_cotrans=FE(29.3=100)
A:
NA
C2:
PF0269010=Na_Pi_cotrans=PD(22.1=18.5)
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:
TGGTACCACCACTACAGCCAT
R:
CGACTCTGCAGGACGTTAACA
Band lengths:
345-1188
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]