DreINT0072244 @ danRer10
Intron Retention
Gene
ENSDARG00000044457 | gfi1ab
Description
growth factor independent 1A transcription repressor b [Source:ZFIN;Acc:ZDB-GENE-040116-8]
Coordinates
chr6:29014987-29016474:-
Coord C1 exon
chr6:29016274-29016474
Coord A exon
chr6:29015382-29016273
Coord C2 exon
chr6:29014987-29015381
Length
892 bp
Sequences
Splice sites
5' ss Seq
CGGGTACGG
5' ss Score
8.92
3' ss Seq
TTTTCTTTTTTTTTTTCCAGAGT
3' ss Score
11.1
Exon sequences
Seq C1 exon
AAAGTAAAACTTCAGACGAGTCGGAGTGCTGTGCGGATGCTCTGACAGGCGACACGACTGGCGCTGGTTCACCAGACTCTCACCTTCTGGATCAAGCTGATCTTTCCTCCAAGTCTCCTCTCAGCTGTGAGGAAAGCGTGTGCGATCGCTCGTCAGATTACGAGGACTTTTGGCGACCACCATCACCATCAGCATCACCGG
Seq A exon
GTACGGGTAGCTATATATATATTTTTTAATTATAAATAATTTTACATACAGATTTCCATAAAGGCTACCTGTCAATTTTTTTATGATTTAGTTTCTAACCACAAATCATTTACCTGAAGGTATATATTTTAGCCTATATTTATATAATTGGTTTTTTTTCTCCTTATAAGAAAAACTACACGTCCTTTTTACTTTACATTTGTTTTTTTTTTTGTTTTTTTGGTTGTGTATTTGAATTTTCTTCGTGCATGCAGAGGGGAAAATTAGGCCTTTATCTTTCAGCTGAACTATGCATTTGCATGTCAAACACTTCTTGCTCCGTCCACGCAGCAGCTACAGATGTGGGTCCCTAAATGTGCAGAGTTGAAAAGACATAAGCCTATTTAACTAGGCTATAATAATCCGCTGCGTAAAACATAGGACATAATAATTGGCAGTTCATTCCGCTGTGGCGACTCCTGATTAATTCCAATAGTATTTAAGCCGACGGTTGGTAAGTGGATAATAGGCTTTTATGACCTGTTTCAGGGGTAAGTCAGGTGACATTCATGGTCGTCATTTTACATTATGCTATAAATGTTTGGCAAACAAACAGAACAAAAAACGTCCTTACTTGGGGAACGCGGGGATCAAGCCTTGCGGGTCACAGACAGCGCCTCTCCAATTAATCTTGGGCACGCTTCATTAAATTTGTATCATTATCAGACACAATTTACCAACAGAATTATTCAATAGTCCAACAACAAATGCAAATTCATATAACTTTTGTATCTCCCCTATTTTAATCTTAAAATATTTTGGCACAAAACAACATTAATAAACGTAAACAGACCCCACTTAAAACCGAATAATAAACATTAAACTGTCGAATATTTTCTTTTTTTTTTTCCAG
Seq C2 exon
AGTCGGAAAAGTCTTTTTCACCCTCCGTGGAAGAAACACAGCCCTTCGCTGTACCCTTCAGGCCTTACGCTTGGAGCAGGTACTCGGGGTGTGAAATCAGGCAGCTGGTCCAACATACCCTCAACCATCACCGCTCTCTGGATCTCGAGCGGCCTACTCCAACCTATTACAATGAGCGCGTGACCGAGCCCTCTATTTTCACCGAACGAGGATCTGGCGCAAGAATTTACAACAGCTATGGCTCCACTGCCTCTTTGTTCGAGCGCGCCACTGCTTCTGGACTCTTTGATGATAGCAGCATGTTGGGAAAAGGAACTGAGATGAAGTCCAGCTCTGATGTGATCTGCAGTCGTCTCCTGTTAAATGGCGCATACAAATGTATAAAATGCAGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000044457:ENSDART00000065139:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.500 A=NA C2=0.197
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:
GACTTTTGGCGACCACCATCA
R:
TCCTTTTCCCAACATGCTGCT
Band lengths:
351-1243
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]