GgaINT0039278 @ galGal4
Intron Retention
Gene
ENSGALG00000004526 | TNR
Description
tenascin-R precursor [Source:RefSeq peptide;Acc:NP_990607]
Coordinates
chr8:7034158-7035518:+
Coord C1 exon
chr8:7034158-7034319
Coord A exon
chr8:7034320-7035354
Coord C2 exon
chr8:7035355-7035518
Length
1035 bp
Sequences
Splice sites
5' ss Seq
CTGGTACAG
5' ss Score
3.91
3' ss Seq
TAACAGCTCTCTTTCCACAGGGG
3' ss Score
8.98
Exon sequences
Seq C1 exon
GCTTGGACAACATCCACAAGATCACATCGCAGGGACGCTACGAGCTGCGCATAGACATGAGGGATGGCCAGGAAGCAGCATATGCCTACTATGACAAATTCTCTGTTGGCGACTCCCGGAGCCTCTACAAGCTCCGGATAGGAGACTACAATGGCACTTCTG
Seq A exon
GTACAGCCTCAGGGCTAGCTGGCACCTCAGGTGCAGCAGGGAAATGCTGGGACCAGTCAGTTTGAAGGCATAAAGGAAATCCCAACATCAAAGCTTACATGTCTGGAGTGGCAAGATGCAAGCCTGTAGCCCTTTCTGCCTTCCTGCAGTTCATTGCGTAAAGCAGGCTGATAAATTCCACTAGGGGCCGAGGGAATTTGCCATCGGGATAATATATTAAATATCAGAGTCACTGCTGTTCAGATAATCAGGTCAACTGCCAGAGGTGTCATCTCAATGAACATCACCGCAGCTCGCTATTGATGCTGTGCTGCAGGGTGTGTTTATCAACCTCCTACAGCAATGGAAAAATCTGAAATCCTCTGCAGAACTTTGTCCCATACAGACCCAAAGGTAGCCACTTCTATAAGGACACAGGCACACATGTTGGCTCAGCTGACACAGCAGCATTGAGCTTTGCCCAACGTGTAAGTTTCTCTCCCCTTAGTAGAGAGGGGAGAGCAGGCTGGTGGGTTTGATGGAATAAGAAATACCAAAGGGTCGAAAAGACACTTTCTCCCTCTTATCCAGAGGGAGAAAAGAAAGGCAAGCATTTTGGTTCAAGAGAAAAATGCTTGGTTTCCTCTAGAATGGGAAGGTCCCTTTGGTTAGCAAGAGGGAAGGAGGGAGAGAAATTCCTGAAGGTATGCAGCAGATCCAGACTCCAAGTAATCGGGGCTTTAGCTCATTTCTGTATCACTGAAATCCAGGTCCAAACACAGACTGCTACTTTATCTTCCAAACCCTAAGATCTCCTATGGCCTGTACTGATCCAAAACCAACAGCAGAGGACCTCAGATGAATCCACCATGAGTAATCCCAGTTAACACTATTCCCACACCATCCCACCAGCCTTCAGCTCTTTGAGCTGCTGACTGACAGGCTACCACACACACCAGAATTTCCTCGTGAAAGTCCAGATGGCTTCAACATTGAGGCACGCAAGTCAGAAGCGAGATGGTTGGTCCATCCCCCTTAACAGCTCTCTTTCCACAG
Seq C2 exon
GGGACTCCCTCACCTATCACCAGGGCCGCCCCTTTTCCACCAAGGACAGGGACAACGACGTGGCCGTGACCAACTGCGCCATGTCCTACAAGGGGGCCTGGTGGTATAAGAACTGCCACCGGACCAACCTCAACGGCAAGTATGGAGAGTCCCGGCACAGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004526:ENSGALT00000007207:20
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=0.109
Domain overlap (PFAM):
C1:
PF0014713=Fibrinogen_C=FE(25.7=100)
A:
NA
C2:
PF0014713=Fibrinogen_C=FE(25.7=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:
AACATCCACAAGATCACATCGCA
R:
CTGACTGTGCCGGGACTCTC
Band lengths:
318-1353
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]