GgaINT1028064 @ galGal4
Intron Retention
Gene
ENSGALG00000012483 | TMPRSS6
Description
transmembrane protease, serine 6 [Source:HGNC Symbol;Acc:HGNC:16517]
Coordinates
chr1:51319861-51323393:+
Coord C1 exon
chr1:51319861-51320045
Coord A exon
chr1:51320046-51323351
Coord C2 exon
chr1:51323352-51323393
Length
3306 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGT
5' ss Score
10.24
3' ss Seq
ATATATTTCTTTTCTAACAGAAT
3' ss Score
8.75
Exon sequences
Seq C1 exon
GGAGGGGGCTCTGACCTTCTTCTTCTGGTTTACCCTCCAAATTCCTGAGAGTCAGCAGAAGGAGATGACTGCTGAGAGGGTAAACGCAGTGCTCCACCAAGAGCTTACCACCAGCTTCAACAGCTCGGGCAGCCTGTCCTACCAGGCAGAATACAGGGTCAACCCAGACTCGCTGATTCTGCTGG
Seq A exon
GTAAGTACCAGCTGCTCAAATGTGGGCTAAGCAGTCAAAAATGGCCCAAAGTTGGCCAAAGGTGCTGAAGGGAGGTTATAAGAAGTGGGCAGAAGTCACTACTGAAGGAAACAGGACAAATCTAAGAGGATAAGGAAGAAATAAGGATGAAGACAATTACATGTGTTTCTTCCTCATAGAGGAATTCAACCTTCATAAGGAACATCCTTCCTTTGAAGGATTAAACATTCTTGGAGATGCAGCTGACCATGACCAGTTAGGTAACAATCTTTCCTTCACCTTCTCCTGATCAGCCTTGGCTTCTGTGAAGACACATCTTACACAGGTCATGACTTTACTTGCAAATTTTGAACTGAGTTGATCAATTAGGTTGTCTCCTTTCACTGTCTCCTTTCATATGCCAGTCTACGTGACTGAGAGAACAAGGTCAACATATTTAAGTCACCACTAGTCTTACTCTGAGACAACGCATTGCAGCAGCTACGGTTCCTTCCCAAAGTGAAGATCACAGCCTGTTTAAAAAGAAATCCCTACAGAACTTCTCTAAATGTGTGTTAAGTAAAGGACTACAGGGTGTGTCTACATTCAGTGCATCTAAGTTCGATGGAACTTGTATTTAGCCTTTATAATGAAACTTAGCTTCTTATCCTCGTCTGATCCCTCCTACAGAGCCCCAAACCACAGGGGTTTTAAAATACATTGTGTTTCTTCTTTCCTCTACAATATCTCACTCCCAAGTTTCTTCTCCACATTAAATGTTACAGCTCCAAGTTTTTTTTTCCCCAGACAATGTTATGTTGCATTTTTTCAAAGATAAATCTTACGTTAATATATCCCACTCATATTTCTTTAACTTTTCCCTCCACATCTCAGTTGTTTTGATTTGGTTGTAATTTTTCTGATGTCCCTAAAGTAAATTTGATTCTCTTAAAATGATCTCACTCCCTCATCCATATATTTGTGTTAAGATATTGTGCTGAAACTGCATTAGCATCCCATGAACACCTCTCTGCCTGCAGTTAGAATTAGTCACTTCTGCTTATCATTTGTTTCTGCCTGTAATTTGTTTCCAGCATACTAGACCTTACGTTCAGCCAACTTAAATTAACTTTCTTAAGAGAGATGTCATAAGACAATATGCTAACTGCTTCAAAGTCAGCCCATCTTGCATTTTCTATTTATTTACTGCATAATGTAATTCATAAAAAATACAAATGATGGTGCCATTCTTTTAGCTGTCTCCAGTTCCCTCTTATTCCCTTTGCATCTGCTTCACTGCTGTCTTCATTTCAGGTAGATTTGCATGAGCAGAACGCACATCTTCCTATTTTAGAGTTAACACGCTAGTCATAGTTTCTCTGGCTCTTTCTGCTTTCCCTCATCCTTCCTGCATTCCAGCCTAAGCCACAACCTTTTACACTGCAGGGCCAGAGTGAGTTCAGTCCAGTGGCTTAACCTCTGGCTTCCTTTGCTCTTTAAAAGCAAAGTGAAAAAATAGACAGCAAATAGCAAGCCATTAGCACTTCATTGCTTTCTGACAGTCTCACTTGCTGACCTGCTTAGCTCTAAATATGAATTCTTGCTGCAGTCTGCCATAATATGCAGAGCTGTGGACTACTGACTAGTGTAGGAACATTTTCCATCCTTCCAGTGCTTTATTTTTAACAACCACACTCACCTCAGGTCCCTCATTACCCCCAAAGAGTATCAGGACTTCCTTCATTCTCCTTGCAAGAACTTAGTTTTATTACCTTCAGATGAAAGTGCATGTAACGCCAGCTCAGCATGTCCTTCCCTACACACAGCATGTGTGCCTCTCCTTGTGCCTGCAGGATCATCCTTTCCACAACATCTGTTTGTACCGTGACAAAACACCAGAGCTTTCCCTGCAGAATTGCAAGCTTTGCTTAGTAGCCAAAAAACACCAAAGCCCCAGCCTAGATAAGCTTCCAGCAGCAGTCCTCACGCCCAGCTGACCTCATGGTGCCTCTTGTTCTGGCAGTTGCACCTGATCCCTGGCTGCTCACTGTTCAGCTGGGAGGCTGAAGCACGGCCCAGCTCCTAAAAGGGTTATGTACCCTGTAGCGTTGTTCTGTGTAACTTTAGAGTCCATGCTGGTGCTTTTCTCTGCATCACATCCCCAGAAACCTCTCCCCAAGAGTCTATCCTACATCAGGGAGTGGTCTCAGGGGGGGCTTAGAGTGATAGTTTGAATTATTGAGTTGCTCTTCTGTGTTTAACCCTAAAAGGCTGTAGTTATTCACACAGATATCAGCAGAGCCTTTCTGTGACTTTGCTATATAGCACAAGCTGTCAACCTGTAGCAATAGAATTAAGAAGCCAAACTCCTGGTAATGTGAGAGGGAGGAGATCAGATTTACCCCACAACTTCAGATGCAGAATTTCAGGACCTAGACCTCAGTATCAGCTGGGACCTGGATATTTGGTGGAGTCCCCATCCCCAGAGGTGTTCAAGAAAAGTGGAGATGTGGCATCTGGGAACATGGTTTTAGTGGGCCTGGTGGTGATGGGTTGACGGTTGGACTAGATGATCTTAGAGGCCCTTTTCAACCTTTATGATTCTCTGATCTGGGGACTAGCACCAGGATACCAGGAGCGTTCAGTCCAGGAAGCAGGGCTGCCAGCACCTTCAAAGCATGCCTTAAAGCCCAGAGGCATCACTCTTGGGCTCCCCTCTCCTCAGGCTTGGTGGTGATGAGTTGATGGCTGGACTTGATGATCTTGGAGGTCTTTTCCAACCCAAATGATTCTATGATTCCCCAACGATGGACACTGTAGGCTATTCAGTAGCAATCAACAACACACCATCAAGAGACCTGCTTCTCCACCTTCAATAAATCCTCTGCTTTTCAGTGAGAGTTATCTGAACTCAAAGAGCAAGGTGGAGGCTCTGGGATGGGAGGCTGTGACCTGTGGTGTGGCTTCCAGGGAAGGGAGTGCCTAATGCAATTTCCAGACCTGGTAAGAAAGAGAAGAAGCCCCTGAAGTAGCACCAGGGAGTGGGAAAGGGAAAAAAGCAGAGGAGCCTGTGGTGGGCTGGAAAGAATGAATTAAAGGTGTTGGATTTGGGACAGGGGCCAGGGAGATTTTCCAGTGGGATGGGATGAGAAATGCATGACTGAAACAGATCTCTGAGATCAGACAGATGTATGTGGAGAGTGCCCCAAGCTAAAGTTTTAAGGGAGTCATCTACATAGGAAGGGAGTCATCACCTGCTATGCTAGCATGCAGATACAACCATTTTTCTTTTTGTTTATCTTCCTTTATATATTTCTTTTCTAACAG
Seq C2 exon
AATCCACTGTGAAAGACATAGTAGTGCTGAAATCCACTCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012483:ENSGALT00000020394:4
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:
PF0139015=SEA=PD(42.5=71.4)
A:
NA
C2:
NO
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:
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]