GgaINT1028069 @ galGal4
Intron Retention
Gene
ENSGALG00000012483 | TMPRSS6
Description
transmembrane protease, serine 6 [Source:HGNC Symbol;Acc:HGNC:16517]
Coordinates
chr1:51326368-51328116:+
Coord C1 exon
chr1:51326368-51326477
Coord A exon
chr1:51326478-51327970
Coord C2 exon
chr1:51327971-51328116
Length
1493 bp
Sequences
Splice sites
5' ss Seq
AAGGTTTGT
5' ss Score
7.81
3' ss Seq
CATCTGTGTTTGCTCCTTAGGTT
3' ss Score
11
Exon sequences
Seq C1 exon
GTCCCATCCCTCGACTATGGAGTCACCCTGTGGTTCGACGCCTATGCGCTCAGCAGACAGAAGCAGGACCTGCCCTGTACACAAGGCCAGTGGATAATTCAGAACAGAAG
Seq A exon
GTTTGTGCTAGTGTCCTGGTTTCTGTCTCTTGCTTCCTACTCCTTAACTGGGAGGAAACCTCTGCAGGTTCCCTGCTCAATTCAGCCACCAGGTCTAAGGAGGGAGATCCCAACACCCTGCTCAGTGGTCACTATCTGGGATGATGCTTCTTTCTTGGCTGCCTACTCGTTTTTCAGCCTCTCTCATTCACAGGCTCCCTAGTGAACACATTTCCTATAAATTTGCTCCGAACTACCAGCCTGCCTTCTCTGTCTTGCTGTTTGCGTCATGCTTCCTAGTTTTCCCCTCTGTGTGTAACCTTGGTGTCCTCCCACGTCTCCTGTGTTTGCAAATCTGCCCGTCACCACCTCTGCAATATTATCTGCGTGTGCCGTTGCCTCGCATCCACCTCCGTACAGATCTTCCGCCAAGCTCCAGATCCTCCTGCTTTGATTAGAACCACATACCCCTGTGGGACTTCCCATAATCAGCCTCCTCCATACATAGGCTGCTTCTCACCACCACCCATGTGCAAGGAGACACAGCTGCAGCACTCAAAGCAGGCTTGGAGCCGAACAGACCCTTTTGTTTCCTAAGAACCATTGCAAGATTGTCTTCTTCCCTCCGAAACCTCCCCCAGCATGCCCCACTGATTTCCTCTCTACCACTCCTGCAGTGGTAACTTCTTTTCCTCTGAAGGATCTGATCCAGAAGTTACTGAACACTGCATTCCCCTGGCCTAGGATTTTCATTTTTTCTCAACTTACCTTCCTCTCTGAAACCATCAGAGCTACAGTTTCTACACCATGATTTCTTAGGGAAGATATATATAAGAATTGAACTGCTTTGTGTAGCCTGACTTCAACACTTGCCCCCAAAGTGGGAAATGTCCACAAGTAGGGTCATGCTGGACTCATGTATGGCTAGAGGGTAGAACTGGGTGACAATATGTATAGGCTGTTCTCATCTTGTTCATCAGGCTTCATTGTGCCCTGTTGTACCCAGATATTTAGCCTCTAATTTGTTGGCCTTTCTGCTTGTTTCCCTTTTTTTCTTCATCAGTTCCCACCACAGCATACGTGTGTGGTGTTTTTTTCATTCCTATTTATCCCTGGGGTTTAATCACCCACCTTCTTCAGTTATTTTGGGGCAGGCCCTAGCTTAGTTATGCTGCCTTGTGCCCAGAGAGGATCTCTTGTTTCTGCAGGGTTACTCTTTCCTCTCTTGGTCTTGCTCAACCACTATTCTGTGGCCAGGAAGAGCAAGATTGAACCAGGCAGAGCAAGATCCAGTGTCAGCTCTCCTACATGTTGACTGGACATGGGTGTAAATAACAACCTTTTCCCATTTCTCCTTCATAACCTTATACCATTTTAAAGTATTTTGCCTTATCTCCTGCACCCTGTCTGTGTGGTCTCCTTCCCATCATCCCCAGCCCCAGAAAACCCCCATGCCCCACTTGGCTGTCTTCCCCATCACTGCCTGAGACATCCCATCTGTGTTTGCTCCTTAG
Seq C2 exon
GTTGTGCGGCCTGCGGACCCTACAAGCTTATGCTGAGAGGATCCCAGTCACATCCTCTGCTGACATTGCCATTACCTTCACCTCGCAGATCTCCTTAACTGGCCCTGGTGTGCAGGCAGCTTACAGCCTGTACAACCAATCTGATC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012483:ENSGALT00000020394:9
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:
PF0043115=CUB=FE(31.3=100)
A:
NA
C2:
PF0043115=CUB=PD(35.7=82.0),PF0005713=Ldl_recept_a=PU(2.9=2.0)
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:
GTCCCATCCCTCGACTATGGA
R:
TCAGATTGGTTGTACAGGCTGT
Band lengths:
254-1747
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]