GgaINT1028056 @ galGal4
Intron Retention
Gene
ENSGALG00000012483 | TMPRSS6
Description
transmembrane protease, serine 6 [Source:HGNC Symbol;Acc:HGNC:16517]
Coordinates
chr1:51328963-51331450:+
Coord C1 exon
chr1:51328963-51329061
Coord A exon
chr1:51329062-51331336
Coord C2 exon
chr1:51331337-51331450
Length
2275 bp
Sequences
Splice sites
5' ss Seq
GCGGTAAGT
5' ss Score
11.37
3' ss Seq
GTTGCTTTCATCCTGTGCAGTGT
3' ss Score
7.7
Exon sequences
Seq C1 exon
CCTGTCCCAGGGAGTTCCTGTGTTCTGTGAATGGCTTGTGCGTCCCAGCCTGTGACGGAATCAAAGATTGCCCCAATGGGCTGGATGAGAGAAACTGCG
Seq A exon
GTAAGTGATGACTTCTAGCTGCTTGTCCTTGATCCCATGAGGACACAACTCCTTGCTCTTCCAAAGGTAGGGAGAGATAGGGAAGGATCCACATGACCAGAGTACAACTTGTGCTTCCCCCTTCAAGTGATAAAATCTGTGTATCCACAAAGGTGTCATCCCACTGCCAAGTGGTTTCAGATTGTTCTGGGAGGAGCAGCAGCAATTATTCATAGCACCATACAATGGTTTGAGTTGGAAGAGACCTTTAAAGGGCATCTGGTCCAACTCCCCTGCAATGAACAGGAGTACCTACAGCTAGATCAGAGTGCTCAGAACCCCTCCAGCCCAACCTTGGGTGTGTCCAGGGATGGAGCATCCACTACATCTCCTGTGCATAGTGCAGTCATCCCTGGAGAACCCTGATAGAGCTTCAGATAGTCTGAAAGATCCCCCTGTCCACGCTGCCCACCACCTTGTCCTGCCTTCCACCACCCTGCCTGGCAACCTATCTCAGCCCTGGCCTACAGCCCCCTCTGCTGTCTTTGCACTCAGTGTCCCCTTCCCAACCCTCTCTCCCTGTCAGCACCTCCTCAAAGCCAACATCAGCTCTGCTCCCTCCTCTTTTCCCCAGGCCATTTGTGACACATTAAATGCAGGAATCCTGAATGATATTTAGCCAACAAGTTGGGAAATATTTTAAGTCTTTGACCAACCATCGATTCTCAGCACAAATACCAGTTAGTACTGACTCAGACACTGCCCACAGTATCCCAGGATTCCTGCGGAGTCCTGTTCTCATAGGAGGAGCTATTCAGGCTCAAACAAGACACCTAATTCAAACCATATCCCATCACTGGTATGACTGAGTGCTCATCACATTGCTGCCACAACTAATTTTTCATTAGTTGTCCCCTCTGGCTGTTTTTTCACAGCCAATAAGTTCCCTGAACCACTGAAGACAGTGGCCAGTTCTGAAATATTCAGCATTCAGTCTAAAATATAAAAGAGAATAAGAGAATGAAAATGGAGAAATCTTTCAAAAGGAAATTTTCATTTGCTGCTGAAAACATGAAAGTTCTCACTGAATCACTGAGTTTGAGGGACAGTTATGGGAGGGTCAATGAATCATAGGATTATTTTGGTCCAAACAGGGTGAACAGGGACACCCAGAGGTAGATTAGGGTGCTCAGAGTCCCTCCAGCCTGACCTTGGATGTCTCCAGGGTGGGATATCCAACACCTCTCTGGGCAACCTGTGCCAGTGCCTTACCACCCAAAGTCGGGTCACCTAGGTTGTTCATGGTCTTGGGCAGTCAGGTTTTGAGTACTGTCAAGCCCTGAAATGAACACAATGCTCTGGAAGTCTCTCACCAGAGCTGAGTAGAAGGGAAGGATCACCTTGTTTTGTATTTTCTGCAGATTTGCTGAGGATGCACTACGTCCCATCATCCAGGTCACTGACGTCAGGGCTTGTATACTTCCCTCTTGCAGATAGACGTTCTTACATTCTTGTAATTGTTGCATGTCTGATTATTCATCCTCCTATATGGAACAGATCCTGTCTTTAAAACCAGTTTTCACATTGCCTCATACCTTCATGTGCCTTTAATCTTCTGGAAGCCTCACACTAATTAGTGAAGAAAGTAGAGTCATTGCAGTAAGAAAATGCCTAGGAGGTAGAGGTCCATCATGTTTGGTGTTGCACATAAATGCAAAAAGAACAGAGCAAACATCAGTTCTTGCTATATAAATTCATAATCACAAGTCAATCTGTGATGAGTAGGCATTGGTTTCCATCTTGAGCAACTACCAGACGTCATGGACATCAGGAAATCCATCAGGGTTCAGGACTCACCTGCCAAAGAGCAGGAGGAGCAACTGCTCTGCAGGGAAGGTGATCCACGAGCTGAGGGTGAGAGCAAAGAGAAGGGACAGTGACCTCAGCAGCCAGAATGCGACCCCATAGAATTTGAGCAAAGTAAGCAGAGCAACTATGGTGATGGTAACCAAAGTCAACTCAGAGCCCAGGGTCCATGAGACAAGCCAACAGTATTGAGGCAGGCCTAAGGTGAAGCCAAGAAGTCAAGGCAAGCCAGGACAAAATCAGCAAAGTATAAGATGTGGTACAGAAATACCTACAGTGTAGCTCAGGCAAAAACCTGAAATTAAATGACTTGTGCACAGGCCACCAGGCCCTCACAAGGCAGGGAAAAAGGTTGTGGAGCCTATTGGTGACATCGCACCTAGAACTATATCTTGTGCATTTAATTGCTGGTTGCTTTCATCCTGTGCAG
Seq C2 exon
TGTGCCCTGCAAAGTTCCAGTGCCAAGAGGACAGCACCTGCATTGAGTTCAGCAGGGTCTGCAATCAGCAGCGGGACTGTGTCAACGGGAGTGATGAGGAGCAGTGCAATGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012483:ENSGALT00000020394:11
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:
PF0005713=Ldl_recept_a=PD(94.1=94.1),PF0005713=Ldl_recept_a=PU(0.1=0.0)
A:
NA
C2:
PF0005713=Ldl_recept_a=WD(100=92.3)
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]