HsaINT0152824 @ hg19
Intron Retention
Gene
ENSG00000169507 | SLC38A11
Description
solute carrier family 38, member 11 [Source:HGNC Symbol;Acc:26836]
Coordinates
chr2:165809217-165812035:-
Coord C1 exon
chr2:165811719-165812035
Coord A exon
chr2:165809292-165811718
Coord C2 exon
chr2:165809217-165809291
Length
2427 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAA
5' ss Score
8.59
3' ss Seq
GGCATTTTATGTTTTTTCAGGAT
3' ss Score
9.15
Exon sequences
Seq C1 exon
AGAAACATCCTGCAGCATCTCCGTCTCCGGAGGAAAAATACATTTGTCTGGGCGAACTCCGGTGGAAAAGCGCCCCAGGCTGCCACAGCCTAGAGATCTTGGGGCTGCAGCCCTCGCGGCCTGCCGAGGGAGCAGGGGGCGCCCGTGGAACTGGCTCCCTGCAGCTCTGCGGCTACACGCGGACCTCGGCTGTGTGCGAGGTGGCGGAGGAGGCTGGCCGGGTGCGAATCCGTACCCAGCCCCAGCATCTTCCACCTGCTGAGGACCACCGCTCAGCCATGGGCTACCAGAGGCAGGAGCCTGTCATCCCGCCGCAG
Seq A exon
GTAAAACTAGCGACTAGGCAGGTTCTGAAGCCAGTTGTCCGGAAATTTCATTCACCTTGCAACAGGTCAGGTCACCTACCTTCACCTGGGCTCTTGGTTTAGCACCGCGAAAAGTTCTCTGGGACAAAAAGTTTTGCCTTAATCTGACTTTTTTTTTTTTTTTTCTTAGCAGGCACTTTAATTTCACAAAATCACATCACTGAATTCCTAACAGATCCTGTACTTAGCAGCTGGGGCAGCTGTAATCTGGAAATTTTAGGATGGAGTTTGCTTACCAAGCTCTGTTGAATTACTAGCTGTTATTGTTATTCTTTATTACTGTTATCCCGGCATTTATTTTATTTTCATTAGTGACATTACTTATTATTACTAGAAAATCGTGTTAGTATCCTGCATTACATATTTGTTACTTTTCTAATTTTCTGAACTAGTATTTGCTTATAATTGCTATTTTATCTATTAGAGAGATTTAGATGACAGAGAAACCCTTGTTTCTGAACATGAGTATAAAGAGAAAACCTGTCAGTCTGCTGCTCTTTTTAATGTTGTCAACTCGATTATAGGATCTGGTATAATAGGTAAGTGTATTTGCTTTGGTTTAAATTTTAAGTGAAAGGGCAAAATTTAAGACTCGCTACGCTGCTAGTGTTCATTAATTATTTTTAAAGAAAAAAAGACTTAAATAAGAAAATTGGTAATTTTCTTCCATAAAAGGCTTCCTTTTTTTCTAGTGTAACAGTATGTATGCATGTCTTTTATGCTGAAGATGGGGCTGTAATTCACACTGTTTCCACAGTTGAGAGCATCTTCCACATGTGGTAGATTAAGGTGAAACTGCATATGGGTGGTGGTGAATCATTTTTCTGTAGGCTGCGTGGTTGATTGCTAGTGTTACCGAATGTACTTTTTCCACTTACTGAAGGGTCCATCATTATTTGAATCATCTTTCTTTAACTTTCTAGAAGTATAAAACTTCCAGATATTTGTAAATGTTGGAGGTGAAAAGTTTAATATGAAAACATACCAATCTTATGAAAAATTAAATTCATACATTCTTTACCTATCTATACAGTGTTAAATTTTAAAGTACAAAATTATTACAATATATTAATTTTAAATATTATTTAGTCAACAATGCAAATTTGTTCATTGAAAATGCGTATTATTTTCCTAATAAAGGAGCCATACAATCAGAATTAAAATAAATAAATAGCTCAGATTTTTCCATTGTATTAGAAGCAAGGGAAATTTACTGAAAAAAGTTAAAAGTGCATTGCATTATAGTAATAAAAGCAGCTATATTTTCAGTGGTTATTATTCTTTTTGGTATCTGAAAACACTCTATCTCAGAAAAGACAAGAAGAAAACAAAATCCTGCAAAATGCAATACTTTTTGAGAATACAATGTTTTATAAAGTTGCAACATTTTTGTTTCTGTCATCACCTTCTGAAAATTAAACATTTATCTGGATTGAGTTACTTTTCTTACTCTTGAATTACTTTTCTTACTTTTCACAAGTTAATATGGTTCTTGATTTTACATTTTTCTATGGATAGTCTTTTTTTTTTCTCCAAATGATACATAAAATGGAGTTACCTGAGGTAAAGTAGAAGGAAACAGGGACAAAGACTTGTTTACAATTCTACCTCCATGTACCATGAAGGTATGAGCAGCTGTACTTAGAAGAATTCTAGAGCTAATTCCTGATGTGAACGTGTTAAGTTAAGCCGTGTCAGCAATGCTAAACAGTACCACTGCTCAGCAGCTTGTTTTCTTTTCTTTAAGGGAAAACTTTTCAGAGAATAAAAATTTTGACTGGAAATACGTTAACTGTGTTTGTTTTAAATATTTTATTGTCCATAATCTAAAGTTGTCAATTTCCCCCAAAATTATAAGAAATAATTTATGTACCCCTTTGAGCATTATAAAAAATACTTTCGCCTTCTCATTTTTCTCTCATTTTTTTCCTACATAGTAGCCCCATTTTGACTCCAGAGTCTGTCTTTCTTAATATTCCATAACCCTTCTGTGCTCCTTATTATCCTCTCTGCTTTCTTGGCTAGCAGGTAAGGAAGGATTTGAGGTAATGACTTTCCACATATTGCAGGGCTATGTCACTCTTACCCTGAAGTAAACGTTATTTGTGTGAACTGGCATTTGTTTTTCATTTGCTGCTTTCTAATTCTTATTCCGTCACCTCAGAAACTTGCTCTCTTAACTTGTCCCTAAGCTAATAACATTTTATTCTGAAATAAGTATTAATACCTAACATTTAATATTAATTCTGTCCTATGTGCAACTTACAAATACGTCATATAAGTATATAAATTGACTTTACCTATTATATGCAGAAATTGAAGGGGGGAATTTCTGTGTTTCTAGCTTTCTTGTTAATGTGAAGGGTGGGGCATTTTATGTTTTTTCAG
Seq C2 exon
GATTGCCTTATTCAATGAAGCAAGCTGGGTTTCCTTTGGGAATATTGCTTTTATTCTGGGTTTCATATGTTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000169507-SLC38A11:NM_173512:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.577 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0149013=Aa_trans=PU(27.4=95.2)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Rat
(rn6)
No conservation detected
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]
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)