GgaINT1025617 @ galGal4
Intron Retention
Gene
ENSGALG00000011052 | SLC38A11
Description
solute carrier family 38, member 11 [Source:HGNC Symbol;Acc:HGNC:26836]
Coordinates
chr7:19501055-19504323:+
Coord C1 exon
chr7:19501055-19501479
Coord A exon
chr7:19501480-19504205
Coord C2 exon
chr7:19504206-19504323
Length
2726 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
TTGTTGTCTTCCTGAAACAGATA
3' ss Score
8.17
Exon sequences
Seq C1 exon
CTGTATATTTGCAAAGTATCCCCCCTCAGTGAGAGGTCCCAGCTGAAGATAACTGAGGTAACTAAGGATTCCAAATATTGGCACGGTAATTTTACCTCTTTCCAAGTAGCTCAACATAAACGAGGAGAAAAAAAAAACAAGAGTAGCGTCTCTGCACATGGGCACGTCCCCGGCGCAGGCAGGCGCTGTGGAGCGGGACCAGCCGGCTGTGTGGAAAGGCGGGAAGCGGCCGGCTGCCGTGCCTCCGCCCGCCAGAGGGGAGCCCGCGCTGCCCATCTGGGGGCTGCTCCGGGAGGAGCGCGAGAGTCGCCCCGCGCTTCTGTGCTTCCTCCTCTGGGGTCCGCGGGCGCGAGGAGGCGCGAGGAGAGCGGCACGCGGCCATGGAGCGCGGCAGGACCGAGCAGCCACCGGCCGGGGCCCCGCAG
Seq A exon
GTGAGATCGGCAGCGTTCAGCTGCTTCTTCTAGGGGGGCTGCCGAAGCTCGAGGAGCTTTGCTTTTTGCTGCGGTGTGGACTCTCGTCGGGCTTTGTGGGGCCAGCAGCAGCCGTAGCTTTTGTTATCTTGAAGTTTCTCCTTAACTCAGTGAAAACAAATTGAGCCGTAGGTACCCAGCAGAATAAGAAAAAAGTAAGCTGGTGAGTCCATATAATATCTAAATATAACCTGGGGAACCGTGGCTGCTTGACACAGCCAAAATTGGCTCTCACTTGGATGCCAGAACTCGGGTACTTTGGGTCCTGGTGGGCCTGTCGTAATCAATGTATGCTGGGATTGTTCTGTTAGGTGAACAGGCTCAGGAAGACCTTATCCATTTCTACAACTCCCTGAAAGGAGGTTGTGGCAAGGTGGGGTCAGCCTCTTCTTCCATGTAAGAGCAATAGGAAGAGAGGAGAACCTTAAGTTACACCAGGGGAGGTTAAGGTTGGATATTAGGAAAAAGTTATTCTCAGAAAGAGTTGTAACACTCTCACAGACTGCCTAGGAGGATGGTGGAGTCACTGTCCCTGGAGATGTTCTGGAACCATAGAGATGTGGCACTAAGGGACGTGGTTAGTGGGCACAGTGTGGATAAGTTGGATGAGATAGTCCTAGTGATCTTTTCTGCCCTTAACAATTCTTTGATTCTATCAGTATGACTATGGGTGAGCCCAGCTGTTTGGTGGCACACAGCTGGTCTCACAGTTCCTAAGAGCTGCTCCAAGAGCCCATTGCTATAGCAATTGGCTCTAAGGACTATGAAGTTTTTGAGCTGTAGTGAAAGTACCATGTTCTTGTTCTAGTAATTACTCAAAACAGGGAAGTAGGCTGTTCTCATTTAGTAGAATTCCCTATGAGCTACACTGTAGGTAGCAAAAGTTAATAACACTCAAAGAGAGAACACTCATGCTGTATGTATGTATCAGTAATGAAATAACATGTACCACTCATAAGTCTAGAACAAACTCCACAAAGGAAAACTGCTACCTTTTATGATGCTGTAAATGTAATAGAAAGTATAGTGATAATAACAGTGTGACACAATTCTAAGCTACAACAAATGAGAACAAGCCCAAATACAGCAGCCATAGACACAAAAGAAGAAAACCTGCTTACCTTCAGGAGGCTTCAAGTAGGCAGGTATCCCTAACAAAATACTCTTACCTCCCCCTCCCCTGTCAACCCTTAAATGAGGACTGGGAAGGGGTGGATCCTGGCTCCACCCCTTACATCCACTCAGGTACATTGCATGCACCTGAGCTCCCTGGGTTGGCCCTGCCTTCCCACCAGGTGCTCAATCACTGTTTCAGGCCATGACACAGCATTTCCGCTACACCTGTAAAACTAGGTGTGATATGGAGGGAATAAATGGGAAATGATGGTTGCTTTCTCTCTGGTGATGAAGGTTTGTTGGAGAAGCCATCAGGAATGTTTAATGGCAGATTCACCAAAGAAGAAGCATTCCTGTCTTTTCATGCAATGCATAACTAAGATGTGGAACTTTTTGCCACAGGATATTGTAGAGGCTAAAAAACATGCAGAGCTTCTTTAAAGGGTACAGTTAAGTAGTAATCCGTTAAGGAAATAACACAACAAGAACAAGCCAAGACATACCAAGGTATGCAAATTGTTGAAAGCTAGGACAAGGTAATCTTCTAATGTACCTTCTATTGGCTACTGCTAGAAATGAGATACTAAGTGATGCTGGCCTTTAATCTGAGACAGCATTACTATTCTAATGTTGATACTGCTTATGGATTAAAGTATTTGATTAAATAAGTAGCAGTTGAGTTCGTACTAGAAGCTATACATGTTAAACAGGCTCTGGTGTCCACAAAATAATGGTTTTATTTTCATGGCAAGCGTACCACGTTTTGCTTTTGTAGAAAAATCAAAAGGCATTTTCTTTGTTAAATGCATGTTCCTTTTCAAATTACATGACTTTATTTAAAATACTGGCATTCTAAAGAACGAAGCTAAAATTTTCTCTGGCAATAAAGTGTAGATCTAAGTACAAGACTACTACATACTCATACAGAGATCCTTTTTGAAGATAATTACTTCAGTTGCTGGAGCTGCCACAAACGTGCACCTTTAATTTTGCTTTGTACCAGATCTTCCCATAGAAACTTTCTGGGGCTACCCAATTCTATGATGTCATTTACTTTTCATGGTGAACTAAACTACTGAAAGACACAGAAATATTGAAAGTACCGGAGAAAACTTTGAATTAGAGCATCTTAATGTGTTGACATACTTCACAAGTAACTTTTGGAATTGATTTAATTCCCCTGATTCAGAGGACTATTTTTACTGAACTGTATGATTAACCAAAATATTTTCCAAAATACTTGATTAGTATTTCTGCCTTTGGAACATGACTAAAAAGCTCCTTAACAGCCTAACTCTAAGTTTGTATAGATTTTTATTCTTCTACTTATATTTTTTCGGAACAAAATTAATTATGGAAGATTATGGCTCAGGCTTATGAAGGAATTAGATGCTTTGCACCCCTTTGATTTCTCACTGGAAAAAATGAAATGTAATTATCAAAATACCTCTACAAATCTGGGTCAATGAAAGTAATTTTTTTTTTTTTTTGGTTTGAATCAACCTTTTTAAATATGTGTAAAATCCATGTTATCACCTATTTTTAATCTTCTTGTTGTCTTCCTGAAACAG
Seq C2 exon
ATAGAAACAGATGACCATACAGCCCTGGTTAGTAAGCCCAGGAATAAAGGAGGAAATGGTGATCTGGCATCAGCTGGATTTAACATTATCAACTCCATTATAGGATCAGGTATTATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011052:ENSGALT00000018002:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.956 A=NA C2=0.350
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0149013=Aa_trans=PU(44.0=55.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
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]