DreINT0072247 @ danRer10
Intron Retention
Gene
ENSDARG00000044457 | gfi1ab
Description
growth factor independent 1A transcription repressor b [Source:ZFIN;Acc:ZDB-GENE-040116-8]
Coordinates
chr6:29013501-29014637:-
Coord C1 exon
chr6:29014472-29014637
Coord A exon
chr6:29013680-29014471
Coord C2 exon
chr6:29013501-29013679
Length
792 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAA
5' ss Score
8.59
3' ss Seq
CGTATGCATTCTCTCTCCAGGGG
3' ss Score
9.59
Exon sequences
Seq C1 exon
GAGAGAAGTTTTGATTGTAAAATCTGCGGGAAAAGCTTTAAAAGGTCTTCCACCCTGTCCACTCATCTCCTTATACACTCCGACACACGGCCCTACCCGTGCCAATACTGCGGGAAGAGGTTTCACCAGAAATCAGATATGAAGAAACACACATTTATCCACACAG
Seq A exon
GTAAAAGAAATAAACTGAACAGAATACACTTGAAACATTGTACAGAAGATTGTTTCCGCAACGGAATAAAAAGGGTTGTGACAAAACTACGACTATCATATGTTGAGTTTTTCACATTTCAAATCTTTTTTTAATCAGAATTGCCACTCTGTATCTTTAAAACCCCCAAACTTAAGCTTTGTTTAACTCAGTGACACACACACACACACACGCACGCACACACACACACACACACACACACACACACAACGACTGAGACAACGATAAACACGAATAGGCCTAAAATAAGTAGGCCTAGTCTAAATAAACTCTCAATTTCGGATTCACTTAAAACTAAAACTCTTTATTGGCATGAAACTCATAAAAAAATAATTTACATCTATGAGCATTTTTCAATCAATAAATGAAAATGGTTAAATTAATTATTTACTCTAAGTGGGCAAATGTTCTTTTGAGAACTGTTTACTTTAAACTTCTTAGCAGAAGCAACGTTTATTTTCGTTGAGAAATGGTTATTTTGTAACGTTTATTTTATCTCGTAAATATTAATATTTTTTGGTTTATAAAAATGTCGCAGTTGAGAGGAAAAAACACTGCGATTTGAACACAATTTAGGTTTAAGTCAGAATTCAGTATCAACAAGTTTTCCCTTAATTGTAAAAAAGTGAGATCACAATCACAATTGAAGTCTCAATTAACTTTTTATTCCCGGGCGGAGCAGGCTTTCTATCTTTTTTCTCTAGCCTATAAGAACTCTGGTTTTAGAAGTTGACGTATGCATTCTCTCTCCAG
Seq C2 exon
GGGAGAAGCCACACAAATGTCAGGTGTGTGGAAAAGCATTCAGTCAGAGCTCCAATCTGATAACGCACAGTCGGAAACACACTGGATTCAAACCGTTTGGATGTGACCTTTGTGGAAAAGGATTCCAGCGCAAGGTTGATTTAAGAAGACATAAGGAAACACAGCACGGACTGAAGTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000044457:ENSDART00000065139:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.089 A=NA C2=0.186
Domain overlap (PFAM):
C1:
PF0009621=zf-C2H2=WD(100=41.1),PF102764=zf-CHCC=WD(100=39.3),PF134651=zf-H2C2_2=PU(38.5=17.9),PF0013017=C1_1=PU(11.8=10.7)
A:
NA
C2:
PF134651=zf-H2C2_2=PD(57.7=25.0),PF0013017=C1_1=PD(86.3=73.3),PF134651=zf-H2C2_2=WD(100=41.7)
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:
AGAAGTTTTGATTGTAAAATCTGCGG
R:
TCACTTCAGTCCGTGCTGTGT
Band lengths:
342-1134
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]