GgaINT0054789 @ galGal3
Intron Retention
Gene
ENSGALG00000011389 | TRAF3
Description
NA
Coordinates
chr5:52356215-52359193:+
Coord C1 exon
chr5:52356215-52356471
Coord A exon
chr5:52356472-52359141
Coord C2 exon
chr5:52359142-52359193
Length
2670 bp
Sequences
Splice sites
5' ss Seq
GAGGTATGT
5' ss Score
9.81
3' ss Seq
CTTTTTTTTTTTCTCTGCAGCAC
3' ss Score
11.9
Exon sequences
Seq C1 exon
AAATTATCTTAGAGCATGGACACCAGTAAGAAGACAGAACCCCCTTTATCTGTAGAAATGGTACAACAAAGGGCCAATCCTGATCGCAGTCCTTCAGCATCAATTTATGTTCCAGAGCAAGGTGGCTACAAAGAAAAATTTGTAAATGCTGTGGAGGATAAGTATAAATGTGAAAAATGTCACTTCATCTTATGCAATCCTAAACAGACTGAATGTGGACACAGATTCTGTGAGACTTGCATGAATGCCTTGCTGAG
Seq A exon
GTATGTTTCCTGTTGTAATGAAGCATGTTTAAAACTTGAGAACTACTGAAAATGTAGTTTGATGTATACTGTAAGCTAATGCCCTGGGCTGGAAGCAGTCTTTAGCTTGCTGGTTGCTTTCTTATTTCTTACCCATGTGCTGATGCAATTGTTTATCTCAACTTCACCCAGTATAGAAGACAACTAAAATTCTGTAAATATTGTCAAAATTGTTGTTAAAGTGTTTTAATCCTATTGTGTTGGTGCAGAAAGTAAAAAGTTAATTGTCTGGAATGTAAACTGAATACCTGTTTGCCATGACTGCTGACATGTCTATTTTGATCCAAGATCCATTTGATAATATGGAACTATGACTGTGTGAAGAAGTGAGCCTGCAAAGGCTCATTGGAATGATAGTACCTAACCTACTGATGGACTCAGATTTACAGCTGATTGGTGGGACCCTTGGATAGATGTTAATGATTGTGGAGTTTCCTTTCCCCATAAAGCGCCAGAGAACACATAGAATTGCTGTGTTTTATGGCTTCCAGTAGGGTCAGAAATGCCAGAGCATAAAATGTGTGAGCAAGTGTTTTAGACATAAAAAAAAAAAAAAAAAAAATACTGAAAGATGTAATCTTTTGCAGTGTAGGTAAGAATAAAAGTGTGGCTGTTTAAAAGGAAGTATCTAGATTTTAAGAAGTATCCATGCATCTGTAGAAATATGTCTTTGTCACTCAACTTTGATGCATTGCTAGTGATTGCACTTAGCAGTGTTATTTTGACACTTGGTCTTATGTTTAGAGGTTGTTCTTGACACTTTAATCTCCTGGTGTAAATAAGCAGTCAGTACTTACGTTTACTAGTAGGTAAGCAGAGGTGCAGAACAAAATGAACTTACTGGATAGTACATATTGCACTACCAATATAGAGAGGACTTAGAAAACTCTGGTGACTTCCTGTTTACTTCTTGTGACCATCCTAACTTGAGGCAGTGGCTTATATTTCACTTGTAATTCTGTAGTCTCAGAAAGATGCACGTTAAGAGTACGTGCCATATCGTAGAAGAGGTTGCATTACAGGCTTGTTACATTACCCTGTCAGACGATAGAGAGTAACCTCCATACTGAGGAAATGCAAGTGTCTGTAGCTCACTAATACATTTCTGTAGGCCTTTTGCTACAGCATGCCAAATTGGAATGGGATGAGGAAGGCTTTTCTTTCAATTCTTCAGGTAAAGTGTAGTTTGCTGTGAGAAATGCAGTTATTTCTTTCTGAATATATGTTTTTGGAAGGCTCTTACATGGTTAATAGCAGTGACTGCAGAAAAGCAAACACCTGGCATGCTTGGATGTGTGCAGATGGACAGAGCAGATCCTTAACAATCCAAGCAGTAACGATTCTGGCATTGCTGGAATCTGGGCAATTTTCCTTCCCTGCTGAGAGACATGCACATGTGCTTATTACAGTGCAGCTAGAATATGTGTAATTTTATCTTCCTCTCTTTTCAACCAGTTTGTTAGTGAAGAGGACACATAGGTATAGACCATCTACCATACTGCTCTTTCTCTCTAGTTATTTCACTATGTTTAAGTGCCTGTTGCAGACAAATCCTGTACAAAATTTCTCATTCAGTGTTGATACGCTGCTGCACACACACTGATTACATACTACTAGGTTCCGTTCCAGGGTCATTCGAGGACAAAGAACTAGCAGTCAGTGTAGCTAACGCAATAAAGATGTCTGCTCAGTATGCAGCTGTAGTTTAAAAGAGCAAGTGGGATGTTTGAGTGAACTCAGTAAAAGCAAGGGAAGGATGATGTTGTATCAAACACTATATGCCCTTAAGTTGATTAGTTCTCCCTCCTCATTTTATTCCTACTTAAAAAACAAACAAACAAAAAAAAAAAAAACCTACAGGTGTTGAAGCTGCAAGGCAGTTAAGATACTCAGAAATACATTTGGATATATAGAATGGTCATTTCAATGAGTAAAGGCCAGTGAGATGATTTGAAATAACTATACTAATTACATAAAATAATTAAACCAATTTGGTCTTTTACATTGATCTGCAGTGTTGCAAACAATGGCAACTTGTATAGTCTGTCAATTAGTTGCCTTGCAAAAGAGTTTACCTAGCAGTTACCTTGTGCTTTTCATCTATGGATCTCGGTGCTTTAAGAGAGAAATTGCTATGGCTATCCTCATTTTATGTGGGGAAAAGGAACTGCAGAGGAGTAAATAGATTTACTCAAGATAAAGGGCCCTGGGATCTGTAGCAGCTGTTGAAACCAGAACAGGATATATAACTCACTGTCAGAGAGAGTGAGGTTTAATTATGTGTTGTTTGAAAGAGGTCTGGATAATTGAAAGAAGCAATATTTTCCATGTTTGCGCCAACAGACAGAAAATTGACAAGAGCTGTGCATCGGGTACAGGTTTCATGAGGAAAACCACTACACAGGTGGCTGGAGGCATAGTGTGGTTTTATTTCCTCAGGAATTCTAGACTCAGTGTTCAAATTTTTTGTGGTAACATCATGTTGCCTCATTCTAGTAAACTGAATTCACTTTTAACATTTAAAAAACACCGTTGAATAATTGTAACTGAATAAAATGCCTCTTAAACTGGAGTTCTTAGGATCTTAAAACTCAGATGAGTTGAAATACAACTTTTTTTTTTTCTCTGCAG
Seq C2 exon
CACTCCGAGTCCAAAATGTACAGCATGTCAAGAAAGCATAGTAAAAGACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011389:ENSGALT00000018576:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.324 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF139231=zf-C3HC4_2=PU(74.4=35.8)
A:
NA
C2:
PF139231=zf-C3HC4_2=PD(23.1=50.0)
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:
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]