GgaINT0039276 @ galGal4
Intron Retention
Gene
ENSGALG00000004526 | TNR
Description
tenascin-R precursor [Source:RefSeq peptide;Acc:NP_990607]
Coordinates
chr8:7032132-7033444:+
Coord C1 exon
chr8:7032132-7032283
Coord A exon
chr8:7032284-7033347
Coord C2 exon
chr8:7033348-7033444
Length
1064 bp
Sequences
Splice sites
5' ss Seq
ATTGTGAGT
5' ss Score
7.35
3' ss Seq
CTTGGTTTCCCCCACTGCAGGTC
3' ss Score
9.16
Exon sequences
Seq C1 exon
GTGGCCGTGTCTTTGCCAACCCTCAGGACTGTGCCCAGCACTTGATGAACGGAGACACGCTGAGCGGTGTCTACACCATCTCCATCAACGGGGACCTCAGCCAGCGGGTGCAGGTGTTCTGTGACATGAGCACAGACGGCGGTGGCTGGATT
Seq A exon
GTGAGTTGCTGTGGCACCCCCTGGCCCCAGCAAAGCTCCAGGAGCAGCCCCATAGCACTGAGCCCCTCTCCAAGGGGACAGCAACCCCCTGAGCCATGCAACTCCCTGCCCAGCTTACCCAGTGGCAGTCTCCCTGCACGTTGTCGCCATCACTGAGGAACCCTATCCCATCCTGCCAGCAAAACCAAGCTCCATGCCAGCTTAATATTGCTTGCCTCATTTCCCACACCACAGGGAATGGCCCACACTCCAGTAATAATAGTTACACTTGGAGAAATGGCCTTTGATTTATTTGACGTGTTTGCGGTGTTTTTGGAGAGAAAAATCTGTGAGTAAATTTGAAGCTGATTTATTGTTCTAGAAATGAAATCAATGTCTACTAGCTTTCATAGGGAATGATTCACACTGCCTGCAATAGGAGGGTGTCAGGCACCACCCAGATTGAATCCGCACTGGAGCATTTTAGAGGCAAATCCCTGTTTTGCTATTGAATTGCACCATCACCACTTGTCTTTACTTAGATGGACTGGCCACTGAGGAAAACAGTGCTCTGGCACTTGGATTGTTTTTGTCTCAAATACTCACTTGCATGTATTATATAAAACCCCAATAGATGTATAGTCCAAATAAGAAGAGAAAAAAGAAGATTTTCCTTAAATGCTGAGTTCCAGCACAGCTATATTTTCAGCCAAGAATTTTCTCTCCATCTCACTCTGATTCAAAGCATCCCGTTGGGTATCACAAAAGAGCCAAGCAAACACAGAATCATGTGCTAGAAAATCAGAGAAACCACACACTGGGTACAGCATAAAGTCTGAAGGCTGAATCTTTCCTCCTAGGTCTACTATAACATTGCTGCCCACATCTTCTAACTTGTCTTCAGCTAATCCATCTGCATCTGAACCAATGGCACGGCTGCAGTTAACGTTAACCAGATGTACATTACAATTTCCTCCACTGAAAGGCACTACGACAGGGCGGAGTATTCTCCTGGCTGTGTGTCCCAAAGCCTGACCAGGTCATCCCACTTCTCACAGAGTTTCCCTTGGTTTCCCCCACTGCAG
Seq C2 exon
GTCTTCCAAAGGCGGCAGAATGGGCTGACCGACTTCTTCCGAAAATGGGCAGATTACCGGGTTGGCTTTGGGAACTTGGAGGACGAGTTTTGGCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004526:ENSGALT00000007207:18
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:
PF0014713=Fibrinogen_C=PU(21.0=86.3)
A:
NA
C2:
PF0014713=Fibrinogen_C=FE(15.2=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:
GTGGCCGTGTCTTTGCCAA
R:
GCCAAAACTCGTCCTCCAAGT
Band lengths:
246-1310
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]