GgaINT1026146 @ galGal4
Intron Retention
Gene
ENSGALG00000000233 | SP2
Description
Sp2 transcription factor [Source:HGNC Symbol;Acc:HGNC:11207]
Coordinates
chr27:3876657-3878459:-
Coord C1 exon
chr27:3877506-3878459
Coord A exon
chr27:3876958-3877505
Coord C2 exon
chr27:3876657-3876957
Length
548 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAC
5' ss Score
7.29
3' ss Seq
TCTTCTCTCCCTCCCATCAGGTC
3' ss Score
12.71
Exon sequences
Seq C1 exon
GACTCCCAGCCGTCTCCGCTCGCCCTCCTCGCAGCAACATGTAGCAAAATTGGTCCCCCAGCAGTGGAAGCCGCCGTGACTCCTCCTGCCCCTCCTCAGCCAACGCCTCGCAAACTTGTCCCCATCAAACCTGCTCCTCTCCCTCTGGGCTCTGGTAAGAACAGCTTCGGGATCCTGTCGTCGAAAGGGAATCTCTTCCAGATCCAGGGCTCCCAGGTTGGCACCTCCTATCCCGGGGGGCAGCTGGTTTTTGCCATTCAGAACCCAACTGTCATCAGCAAAGGGACTCGCTCATCTGCAAACATCCAGTACCAGGCGGTGCCCCAGATCCAGGCTGCAGGGGGACAGACCATCCAAGTCCAGCCCAACCTCACCAACCAGATCCAAATTATTCCGGGCACAAATCAGGCCATCCTCACCCCATCCTCATCCTCTCACAAGCCTGTGCCCATCAAGCCAGCACCGGCGCAGAAAAGTGGAGCTTCACCAGTGCAGGGCTCAAGCAACGTGGTCAAGTTAACCGGTGGCAGCAACGTGACTCTTACCCTGCCCATGAACAACCTGGTGAACACCACAGAGTCGAGCACGCAGGCTCAGGTCATTGCAGAGAGCCCCTCAAAGCCTGGCAAAAAGACTCGAAAGAAAGCCATGTCACCCAGCCAGCCCTCCACCGTGGCCGTGGCCGAGCAGGTGGAGACAGTGTTGATAGAGACGACGGCAGAGAACATCATCCAGGCAGGGAACAACCTGCTGATAGTGCAGAGCCCGGGCTCTGGCCAGCCTGCCGTGGTGCAGCAGGTGCAGGTGGTGCAGCCCAAGCAGGAGTCGCAGGTGGTGCAGATCCCACAGCAGGCCCTGCGTGTGGTCCAGGCTGCCTCAGCCACGCTCCCCACCGTCCCCCAGAAGTCCTCCCAGAACATCCAGATCCAGACGACAGAGTCCACTCCTACGCAG
Seq A exon
GTACACCATCTGCTGTGATGTCCCTCTGCCCTGGTTCTACTCCAAGCCCTTCCTCGGGCTTTAAAAAGCTGAAGAGTTCTGTGAGACACATCCCCACATTGGCATCGGGTTCAGGCGTGGATTCTCTGATGCCCAAGAAGGGTTGGGAGTGCAGCCGCTCCCCTCACTGGAGCTTTAATAAGCCTCTCCCTGGCTGCCTCTTTTCACAGGACTTTTAGGAGCACCATGTCTTTGAAAGCTCTGCTGTGTTTCCAGTTCAGGCTGGAGTTATCCTGCCTGTCAGAAGCTTGGGGAGGCAGGGGAGCAGTCTCACAGGCTGCAGGACTGTTGCTGGTGTTACCTTTGGAAACCAGGCTGCAAATCCAAAGCAGCCCTTTGCTGTTGTACGAGGCCAGGACCAGTCTGCAGGAGGCCCAGCGTTTTAAGAGGCATGGGCAGCTTCTCTGTGGCTTCCTGTGGGCCCACATTTCTGAGCAGCTCTCGCAGCAGAGATTGTCCTTCCCTGCTGGCTTCAGCCACTCTCATTCTTCTTCTCTCCCTCCCATCAG
Seq C2 exon
GTCTACTTCAAAACACCATCGGGTGAACTGCAAACAGTGCTGCTCCAGGAAGCCCCGGCCGTGACGGTGGCTCCATCCAGCACCTCTTGCAGCAGCCCCGTGTCCCGCAACTCTGGCACGGTGACCAGCAGCAAGAAACCAACCGCACGCAAGGAGCGCCCGCTGCCAAAGATCGCGCCCGCCGGAGGAGTCATCAGCTTGAGTGCAGCCCAGCTGGCAGCTGCAGCACAGGCCATGCAGACCATCAACATCAACGGAGTGCAGGTCCAGGGTGTGCCTGTCACCATCACCAACGCTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000233:ENSGALT00000000312:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.517 A=NA C2=0.416
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAGAAAGCCATGTCACCCAGC
R:
TGTTTGCAGTTCACCCGATGG
Band lengths:
351-899
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]