GgaINT1028067 @ galGal4
Intron Retention
Gene
ENSGALG00000012483 | TMPRSS6
Description
transmembrane protease, serine 6 [Source:HGNC Symbol;Acc:HGNC:16517]
Coordinates
chr1:51324704-51325847:+
Coord C1 exon
chr1:51324704-51324840
Coord A exon
chr1:51324841-51325734
Coord C2 exon
chr1:51325735-51325847
Length
894 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
TTCAATGTCTTTTCTTACAGCCT
3' ss Score
9.58
Exon sequences
Seq C1 exon
GATCTATGGCTGCAGCCGGCAGGAGCCTGTTGTGGAAGTCCTCTCATCAGGCCCTGTCATGTCCATTGTGTGGAAGAAAGCCCTGTACAGCTACTATGACCCCTTCGTCCTCTCAGCACAGGTGGTGCCCCTCAAAG
Seq A exon
GTGAGGAAGGCTAGAGGAGGGTGGCCGTAAGTGCAGAAAGGTTATCTCCTGCAATACACTGCACCTAGAGGTGCTCCATTCCCATTAGGGGCCAAGATCGCAAAAGTAGAAATAGTGAGCAAAAAGCGAGATAAATTTTGCTCACTGGCCTGGGGTCACACATCAGTATCTGGCTCAAGACTAGGCAGCCCAGGCTCTGGCAAGCAGAGCCAGAATGATCATGATGCTTCAGAAGCAAGCTCAAGCTCTTGTGACTGCACAGACCAGATAGCATCTAGGCAACACATCCAGCTACACTCAGATAAATGTAAATTCAATATAAGAAACTAAAGCAACAAAATACATTACTGCTGTGCTTCTCTAGACAAGAGGAGAAAGCTAAAAGTCTTGCCGGGTGGAAATAGCCTCTTAGAGGGAGTCACATCTCAGTGAATGGATTACACAATGGATTCTCTAACAGCGACCTGAAAGCAGGTTGTGGCAAGGTGCAGGTTGTTCTCACCTCCCAGGTAATCGCAATAGGATGAGAGCTCATGGCTTCAAGTTGTGCCAAGGGAGGTTCTGGTTGGATATTAGGGAAAACTTCTTCTCCAAAACAGTGGTGCTGCAGTGGCACAGGCTGCCTGGGGTGGTGGTGGAGTCACCCTCCCTGGAGGTGTTGAAGAACCGTGTAGATGTGAGGGACATGGTTAGTGGGCATGGTGGGGATGGGCTGATGATTGAACTGTTTGATCTGAGAGGTCTTCTCCAATCTCAATGATTCCGGGATTCTATGAATGTTAGCATCAGGTCTTAGACCCTCTTTTCTTCCCTAGTACACTTGGATAAGTACATGATGTACCAAACTGAATCTGAGCTGACAGGAAGCAGGGTTTTCAATGTCTTTTCTTACAG
Seq C2 exon
CCTGTGGAGTGAATATAACCCTGCGGGAAGGCCTGGAGCTGCAGGGGAAGATCAGCACCCCACATTACCCCAGTTACTACTCGCCCAATACCCAGTGCACCTGGCACATGTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012483:ENSGALT00000020394:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0043115=CUB=PU(31.3=94.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAGGAGCCTGTTGTGGAAG
R:
CAGGTGCACTGGGTATTGGG
Band lengths:
222-1116
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]