GgaINT0039725 @ galGal4
Intron Retention
Gene
ENSGALG00000004538 | TNN
Description
tenascin N [Source:HGNC Symbol;Acc:HGNC:22942]
Coordinates
chr8:7056478-7057766:-
Coord C1 exon
chr8:7057615-7057766
Coord A exon
chr8:7056575-7057614
Coord C2 exon
chr8:7056478-7056574
Length
1040 bp
Sequences
Splice sites
5' ss Seq
ATAGTGAGT
5' ss Score
6.97
3' ss Seq
CAGCAATCCTTGCCTTGCAGGTG
3' ss Score
7.28
Exon sequences
Seq C1 exon
TTAGCTTCCTCTACCCATACCCTGCGGACTGCGCCCAGATGCAGCAGAATGGAAACACCTCCAGCGGCACGTACACCATTTATCTCAATGGCGATGGCAGCAGGCCCATGCAGGTGTACTGTGACATGACCACCGATGGAGGCGGGTGGATA
Seq A exon
GTGAGTGATTCTCTGCTGCTTTTTAATTTTTTTTAATGAGCGTAATCAAGTGAACCTGGTATTGAGCTTAGCTGATGTTCCTTTTTGTCTGCTATGCTGTATTTCAGTTCCTCCCGTGATGGAGGAGCATGTTTTAGGAAGGGAGTGGATGCTGTTGTACCCTTTCAGACTGACAGTAGGAATGCTGTGGGAGGTTGGATGGCTCGGAAGCAAAGGGATGCTGAACTTTCACTGCTTGGTCACGAATGTGACTCAAGGCTTTTATTATTGCTGATTGAGAGCAATGCCAATTTAACACGTTACCTCTCATTAGCTGAGGCATACAAGTTGTCTATGAAAGTGCAAGACAAGGTAGTACAACTGAAAAGTCTTTTGCAATGAGTTGACTAAGCTCTATTATCTCATCTTGACCACTGTAAGTTTACAGGTATGGACAGTTAATGCAGCTCAGCTGATGATCATATTTTAAATGCTAGAACTGTGAGCATGTCCCTGGATTGAGAGAAACTGGAGGCAAAAACGCAGACACTTTGAGGTGGGGAATTTGTTTAAGGGTGAGATAATGAATCTGAGATTCTCTGATAGCTGACTCCCTACATGAACAAATAAAAATATCTTTATTCCCTTCTTCACCTTTTATTTTCAGTGACCCACTGAAATGAACTGTGTGTTACTGCCCATGGCCCACGGATTCTGGTGAAGTTTAGAAACCTAAGTGTCCCTGTGGGTTTTGACCCTAAGCCTTATTTATCCAGGTGCTGAGATCACACTGGGATTTTTGCTGCCCCCAGGCATTTGTGGAAAAGTGCAAAATTTGCACTACAAAGTACTCACCCCAGGTGTTTCTGTGCAGCCAGAAAATGGCAATGAATCCATATGTACCTTGCTCAGGTGCAGCATACCTTTAACTAGGCGTATCTGCTCCCAAACACTTCACCTTTCTGCCTGTACTTGGATCAGGATGAGGATTTCTCACCCCAACTCTCCTTGACTCTCATATGTCTGCCATGAGCTCTCACTCAGCAATCCTTGCCTTGCAG
Seq C2 exon
GTGTTTCAGAGGCGGAGCACTGGTGAATTGGATTTCTACAAACGCTGGAAAAATTATGTGGAAGGCTTCGGAGATCCCACTGGGGAATTTTGGCTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004538:ENSGALT00000043017:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.059 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0014713=Fibrinogen_C=PU(20.8=86.3)
A:
NA
C2:
PF0014713=Fibrinogen_C=FE(15.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCTTCCTCTACCCATACCCTG
R:
CAAGCCAAAATTCCCCAGTGG
Band lengths:
247-1287
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]