GgaINT0112289 @ galGal4
Intron Retention
Gene
ENSGALG00000026974 | TMEM213
Description
transmembrane protein 213 [Source:HGNC Symbol;Acc:HGNC:27220]
Coordinates
chr1:56471432-56473593:-
Coord C1 exon
chr1:56473524-56473593
Coord A exon
chr1:56472472-56473523
Coord C2 exon
chr1:56471432-56472471
Length
1052 bp
Sequences
Splice sites
5' ss Seq
TTAGTAAGT
5' ss Score
7.79
3' ss Seq
CTTCATTTTTTCTCTTCCAGAGG
3' ss Score
10.43
Exon sequences
Seq C1 exon
GCAGCAGCTGGAGCCTCCAACATTTCAACAAGCACCGTGCACACAGACGAGTATGAACCACCGTGTCTTA
Seq A exon
GTAAGTCTTCTTAAATCATTGCTACCATGATAAAGCCAGGTAAGGAGACTGTACAGGTCATTGGTGAGGCTATCCTGGAGAAGAATTTGTCTGTTATGATCTGCTGTTATCAAGGTTCCAGTTGCAGATGAAACTCGAGGAAGCATTTGCAAGACTTCCCCAATCAGCCAGGCTTAGGCAACTTGAGATCCCAACAGTCCTCCCACAGTCATCCTCCATCCTAAACATGAAACAACCCCAAGTCCTGCACTTCCTCAACTGCAGTACATGCACCAATACAGATATGCTACTTCAAAGGATATCATATGTATAGGAGATGGGTGTCCCTCTCCCCTGTCTGAGCAATTTCTGTTTACTGGTGGGAAAGGCTGCTTGCTACAGCACAGGGCAATAGTACTGCACATTCTGAAGGCCAACACACAAGAATATGGTCCAGCATGATACACTTGAATGAGAGCAACTGAAGAACATCTACACTTGCCTTTTCTTGACAACATGCAACAGGACAGCTGCGCTGCACCACAATCAGAAGGCATTTGCTTTCCAAAGCAGACAAGCAGACATGCATGAGCAGTGCAACATGCAATGCATGTAGCTGTAAGGCTGTTCTGGCTACTGGAGTAGCTCTCCTGGGCTCTGAGGTTTCATGCTCAGTTTCCATTCCAGCCCAAGGAGCTGAGAGACATTTTGGTCCTTTAGGTTCCTTTTGATAGTTTTGCCTCAGAACCCAGCCAGGCATCATCACTGTACCCATGTGATGGAAAACATACGGCATATGCTAACTAGGTATTCTGAAAGACTTCAGCAATGGAGGGTGCAGTGGTAAGGGGACCAGCTTAGGTGTTTGGCCAACTGGGATGACTAAGTCTTGAAGACACATAGATGAAACTGAATATTACCACCCTTGAGCCAGGCTTAGGGGAAATATGCCCAAAGGTAGAGTGACAGGCCATGGGGCAGATTGTGAAGTCACCATCTCACCTACTATCTAGCAAAGAAAACCTGCTCTGTACTTAGCCTCCCATCAGCTCACTTCATTTTTTCTCTTCCAG
Seq C2 exon
AGGTGGACTTCTGCACTCTAGCAGCCGTGTGCTGTCCGACTGGTGTCGACGATTACGGATGGATTGCAGCGGCTGTTGGCTGGAGCCTCTGGTTTCTGACTCTCATTCTGCTCTGTATGGAAAAGGTCATGAAACTCCGGCCTGACGAACCCAAATATTTGGTAGCCTGAAGCAGGGCAAGTCATTGTGCAGCAGTGAGGTACAGACAGACTGACAAAGCATTTCAATCACTTCCAGAGAAACAGAAAAGAAAGAGAACTTGCCTTCAGTTAAAAGAAGTCCACATGTAAGTGGGGCATCTGCTGGGGCTCCATCTTTCCTGGAATGCCAGAGCTGCTGGCCGAAGCTGGCCACCATGAACATACCAGTGCACATAGACAACATATAGTATCATAGAATCATCAAGATTGGAAAGATCACTAGGATCACCTAGTCCTACTATCAGCCCATCCCCACCATGCCCACTAACCACGTCTCTCAGTGCCACATCCACACATTTCTTGAAAATCTCCAGGGATGGTGACTTTGCCACTCTGTCATTTCCCTGAGCCCATCCAAGCCTGTCCTGAGGGTACAATCAGACCCTGAAGGACCCAGTACTAGGCTCCCTGCCCTGACACAACCCAGAACAGCCTTGGAATTTGAAAGAACAGTGGGCTGGTTTCTGAAGGATCAACGCCATGAGATTCAGTACTAAGCTGTGGGCCAGGCTATATCACTAAAAGAATGCAACTCATTGATTATACTGAGCAACTTCTGTTTACTAAACCAAAGTGTTTACTGACACCAAGAAAAAACTCTGTTTTGGAAACTTGAGGCTTGTTTGGGCTGGTTCAAAATTAGAACTAATTATTCCACTGCAATGTATATGTGAATTGCTTTGTGGAAGGTTAACATGTTGGTCGTATCTACTTGGCTTGTACTTGTCTACATAATTAAGACACTACACCACTGCAAATGGGTTTTAAACCAGTATATCCAACTCAGGCATAACACTGGTCCTATTTATCTAAGATGATAATAAACACTCTTCTTGATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000026974:ENSGALT00000046065:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF151921=TMEM213=FE(26.7=100)
A:
NA
C2:
PF151921=TMEM213=PD(64.0=96.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACATTTCAACAAGCACCGTGC
R:
GCAGATGCCCCACTTACATGT
Band lengths:
354-1406
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]