GgaINT1028060 @ galGal4
Intron Retention
Gene
ENSGALG00000012483 | TMPRSS6
Description
transmembrane protease, serine 6 [Source:HGNC Symbol;Acc:HGNC:16517]
Coordinates
chr1:51332908-51334463:+
Coord C1 exon
chr1:51332908-51333179
Coord A exon
chr1:51333180-51334326
Coord C2 exon
chr1:51334327-51334463
Length
1147 bp
Sequences
Splice sites
5' ss Seq
GTGGTAAGT
5' ss Score
10.36
3' ss Seq
TCTTGGTGCTCTACCCCCAGGGC
3' ss Score
9.41
Exon sequences
Seq C1 exon
ACTGGCTTCTCCCTCTGTCTGGACCATTTACTTGGGCAAATACTTCCAAAACACCACCAGCCACACAGAGGTGTCCTTCAAAGTGATCCGCCTCTTCCTCCACCCTTACTATGAGGAGGACAGCCATGACTATGACGTGGCCCTGCTCCAGCTGGACCATCCTGTTATCATCTCACCCTTCATCCAGCCCATCTGCTTGCCTGCCACTTCCCACCTCTTTGAGCCTGGCCTTCACTGCTGGATCACTGGCTGGGGAGCCCTCAAGGAAGGTG
Seq A exon
GTAAGTGGAGCGTGTTTGCTGGTGGCCTACAGCAGCAGGACCAAGGTAGAAACGTAGGTTCAGATGTAGGGTAGGTAGAACAGGCTTCTGCTTCCTTCACTCCCTTTGCTTTTTGGTCACAATTTACCTGCCAAATGTCTCGAAGCCTCTTTCAAAGAGTTAAGTTTGAGAGTCTAGTAAGATATTTGAGGACAGCATGCGTTCCTTCATCCAAAGTCTAGAATAACTCTGCAGAACTTATTAGTCTGGATAACCATGGTCATGGAGCAGCCGCAGTCCCAAAGCCCAACCTCATGCTGTTCAGGCATGTTGGCTCCTGTCATACTGTCTTCTAGGGACAGTGCCCAAATGGAGAGAGTAGAGACAAAAGACTACTCCTCATCAAACCAGCACTGTCTCTCCTGGGGATGCCCTATCAAAGATCCTATCAATCAGCCATATCTTCCCAAGCAACAACTGTACTAGTAAATTTAGTGCAGGGTCTGAGTGATGTCCAAGAATCACATTAGCATAGTTTGGACACACAGAGCCCATACATCGCTGGGAGACAACATGGTCCAAGACATGTTCCCATGATTCCCAGATTCCACTCTATTTTGTGAGGAAAAGAGAGTTCAGCTATATGGGAATAACCCTTCACGTTCCCTTCCCACAAGGCCACCAAACAGGCCCATACTGCTTATAATGCATGGCACAGGAATACATACATGCTCACTCAGCTCAGCTTTGAGTCTTCAGTCACAATCAAACTTCCTCCCTTTGCTTCCTAAACGGAAATACTCAGAGGATTCTGTCCAGAACTGAACACTCTTGGGTTTGCATTACTAAGCCAGAAGGGCTTAAAATCCATTTCATTGAGAAGCAAACCTAAATGCTGGCATTCCAGAGGTTGACCCAAACCAGAATCCTTCTTGTCCCAAAAGCTAAAATGCCCATGACATATTCCTGCAGGGAAAGCAGGGGAATGCTATTCCTGTCAGGCAGGTGGAGTGCTCTGCTGAAAGTCAGAAACTCTGATGCTCATGGACAAACATTCAGGTGGCAGCTTTCAGCAGGCAATGAGATGGGGATGGGCTGGGGGAATGTGCTCAGCTGTGGGAAGCTCCACCCTTTCTCACCTGCATTGCTCTTGGTGCTCTACCCCCAG
Seq C2 exon
GGCACATCAGCAATATCCTGCAGAAGGTGGATGTGCAGATCATCCAGCAGGACATCTGCAGCGAGGCCTATCACTACATGATTTCTCCCAGGATGCTCTGTGCTGGCTACAACAAGGGCAAGAAGGATGCCTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012483:ENSGALT00000020394:15
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:
PF0008921=Trypsin=FE(39.6=100)
A:
NA
C2:
PF0008921=Trypsin=FE(19.6=100)
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:
CTTCCAAAACACCACCAGCCA
R:
TTGTTGTAGCCAGCACAGAGC
Band lengths:
345-1492
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]