GgaINT0039816 @ galGal3
Intron Retention
Gene
ENSGALG00000004775 | GLT25D2
Description
NA
Coordinates
chr8:8049435-8050748:-
Coord C1 exon
chr8:8050542-8050748
Coord A exon
chr8:8050095-8050541
Coord C2 exon
chr8:8049435-8050094
Length
447 bp
Sequences
Splice sites
5' ss Seq
TGTGTAAGT
5' ss Score
7.65
3' ss Seq
TGATTTTTCTCCCCCTTTAGAGC
3' ss Score
10.36
Exon sequences
Seq C1 exon
CTACATCGGCAGGAAAAGGATGCAGGTACAGCAGCCTGAGAAAGCAGTTCCCAATGTCATGAACCTGGTGGAAGCAGATTACTCGTATTGGACCCTGGGGTATGCAATCTCTTTCCAAGGGGCTCAGAAGCTAATTGGGGCAGAGCCTTTCAGCAAGATGCTGCCTGTGGATGAGTTTCTGCCAGTCATGTACAACAAGCACCCTGT
Seq A exon
GTAAGTAGGATGTCTCTGTGGCTTGGGTTGACATATGCTGGGACTTGCTGAATGGTCTTAAAAGTGGATGGCATTGATGCATCTCACTTTTGCAGCCTGGCTGGGGGATCAGGGCTGCTCTCTGTGCGTGTGGGCTGTTTGCAGCAGAGCTGCTGCTGCAGGGCCAAGGCAGTGACAGCCCTGTGGCAGTGGGGCTGTGTGCCTGCCTGGTGCAGGACCTGTGGGCTGTTCTGAGGTGCTTGCTGTCTGGTAACAGAGGCTTTGTCTGCATCACTGTAAGACTGTGTCCCCAACCCTGTGGAGGGTCAGACCTGCCCTAGACCCACCCAGCACTGCCTTGCTGCCCTGGCACCTATCTGCTCAGCGGGTTGGCTTGTGGCTCCAAGTTGTACATGGTGGCACTGATGGACACGCACTCAGCTACTGATGATTTTTCTCCCCCTTTAG
Seq C2 exon
AGCGAAGTACATGGAGTATTACGAGTCCAGAGACTTGAAGGCCTTTTCAGCAGAACCCTTGCTCGTTTACCCCACCCACTACACAGGGCAGCCAGGCTACCTCAGTGACACAGAGACCTCCACCATATGGGACAACGAGACCGTGTCAACAGACTGGGACAGGACACACTCCTGGAAGTCAAGGCAGCAGGGCCAGATCCACAGCGAGGCGCAGAACAAGGATGCCCTGCCGCCCCAGTCCTCCCTCAACGCGCCGTCCTCTAGGGATGAGCTATGACTGCCCGCCTCCCCTGGGCTCTGTTGACAGCCAAACCTGCCTCACACTTTGGCTTTTCACCTTTGGAAGTTGTAGAGCAGCTGTTTGCAGGGCCTCCGTCCTGCTGCGTGGGACGGCACGGCGGGGCTGCTGGGTTGGGCCCCGTGGGGTTGGATCCAGTTGGGTTGGACCCGGTTGGGTTATGGCTCACCGGGCTGCTTTTCCAGGACTGTGGGGATACGAAGGAGGAAAAAGGTGTTCCAGACAGGCAGAGATCTGAACAAAAGCCTTTGCAAGCTTTTGTAGAAGAAAAAGAAATAATTTCTTGAATGATGTCTTTCTACAGTATCTTGTGTAGAATGCTGTATTTATAAAAATTAATATATAGAGGTGTACAAGTGTTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004775:ENSGALT00000039353:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.425
Domain overlap (PFAM):
C1:
PF0175512=Glyco_transf_25=PD(32.3=85.7)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCAGCCTGAGAAAGCAGTTC
R:
TGTGTCCTGTCCCAGTCTGTT
Band lengths:
346-793
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]