BtaINT0066338 @ bosTau6
Intron Retention
Gene
ENSBTAG00000016723 | GFI1
Description
growth factor independent 1 transcription repressor [Source:HGNC Symbol;Acc:HGNC:4237]
Coordinates
chr3:51108454-51112405:+
Coord C1 exon
chr3:51108454-51108619
Coord A exon
chr3:51108620-51111029
Coord C2 exon
chr3:51111030-51112405
Length
2410 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGC
5' ss Score
8.05
3' ss Seq
TCTCCCTTCCATCCCTGTAGGCG
3' ss Score
11.77
Exon sequences
Seq C1 exon
GAACGGAGCTTTGACTGTAAGATCTGTGGCAAGAGCTTCAAGAGGTCATCTACGCTGTCCACACATCTGCTCATCCACTCAGACACCCGGCCCTACCCCTGTCAGTACTGCGGCAAGAGGTTCCATCAGAAGTCAGACATGAAGAAACACACCTTCATCCACACTG
Seq A exon
GTGAGCGAAGGCCTTTGGCTGGTAGGAAACACCTGGTGAGGGATGGGAAATAGGGGGAGGGTGGGGGAGGTCCAAGTGTTTCTCCCTGAGGCCAAGGTAATTCACCTCCTCTGTGATATTCTTGAAGAGAATTGGTGGTAGGTGGGACCTCCCAGAAGGAGTTAATCCACGCAGAGAAAACTGAGGAGGCAGATTCTCTGTGATTCATTTACATACATGGTTCTCCACAGAGTCTTTGATTTGGGGTTATATCTGAAGAACCATTCAGCAGGTCAGCTGCAAGTTTTCTATCCTTGCAAAGAATATTTTCCTCTACGTTAGCAGCTGCTCCAACTTCTTTCTGCTCTAGGTGAAATATGAAGCTCCGGGTCCTTTCAGAGCATTGCTCTAAATGTTTACCTAGAGATCGAGATTTTCTCCAGGGCTACCACCCAGCCTTTTCAGGGGGAAGGGTCTTACGTGCGACCTCTTGGCTGCATTTTTAGGAGTCTGACCGCTTATTCTGATTGAGCAAGGGAAAAAATGGTAAATATTACTAGGCTTTTTCATCTAAGCACTTTTAAAATGCGGTATCTCATTTTATGCTCACAACAACTCAGGGAGGTGAAGACTATTCCTTATCCCCATTTTAGAGAAGAACAAACATAAAGTGAGGCACAGAAGGGTTAGGTACTTTCTCAGAGTCATATTGGTAGCAAGTGGTAGATCCGACTTAAATTCAGGACTGTCTGCTCTCAAGTGTCTATGCTTTCTACCACTGTTTATTGTATTCTGTTTTCAAAGTCAAAAGGATTGGTGAATATAGAACTCCTCTATTCACTTATTGCCCTTTTTAAAATATAAGCAAGTTTGTCATAATAATGATGATTCTTTACTTATTATAATGCTTCATAACGTACCAAATGCTTTCAAGTCTCTCTCTTCCTTTGATTCTTACTCCTGTCCCATAAAGTAGAAGGAGCTGCTCTTACCATCATGAAACTCAGAGAGATGGAATGATTTACCAAAGTTCAGACTGGAAGTAAATCATCAGGCTGTGGAATGCTCTGGCTTCCAGTCCTGGATTCTAAATTTTTGGTTTTGTGTAGGCGGCAGTGTTAATGCCAGGACCACTCTCTTTAATAATCAACAAGATATTTACATGAGAGCCAGAATTTTATTTCAGAATATGAATACTGACTTAATTTGCAGTGTGTTCCAGACAATCACCATTGATGTTTTTAAATATGTCTGGCGTTGCAAAGAGTCGGACACGACTGAGCGACTCAACTGAACTGAAGTGAGTGTAGATGCCTCCGTCAGAAAACCCAGAAAAAATATCCTACTTTAATTGTGTTCTCTTGCCTGAAATTTCCATGCAACTCATTCCTTTTGAGTAAAGGTATTCAAGACATTTACCAAAATGCAACTAGGATCTTGATTGAGTGAAACATTAAGCCTTTATCAAACGTTTTCATTATAGCTAGAATTTGTTTCTCAGATTTGTTTGACCCTAAAGGGATAGGACAAGTTTTGATGAGTGGTTCCTTATCAAGGAAATCTGAAGCACAAAGATAGAAAGGGGTATAGCAAGAGGAACAGAGAGTTCCTCAAAAACAAACTTCATCTATTTTGCATTTTTTCCAAGGCCAAACCTGACAATAATGCCATGCTGAGGCTATTTGAAAACATCATACTGCTTTTCCAAATGTTAAACTGTACATGGATTAGGGGGGAAAAGGAACACTTTTCTGTTATTTATTAATCCATGGTGAAAGAGCTGTTGGTATATAAAGAATCCTGTGATTACCCTCATAAAAAAAAAAGTAAAATCAAGATAGAAAAGGATCAGCTGCCTTAAGAAATACTTTGTGACCCAGGTGTGGATTTTTTAAAAATAAGACTTCGAGAAATACCCATCCTTCAGATGCATTCTGTTGTCCTCCAAGGGCAAGAAAGAAGGCAGCCTCACTGGTCCACACAGACCAACACCGACTTGGAAATTCAGATTTGAAAACTTCCTCTCCATTAGAACAGAGTCACATGGTTTGAAAGACAGCACCCCACCCCCCTACAGCCCTTGTGCTGAACATCTGCTGTGGGGAGCTTTCTACTTCTGAAGTCGGGGGTGTCCTCCCAGGGCGGATTCAGCTGCAGTTCTGGGGAGGGCACGTGGCCTGTGCTCTGCTTCCGTTTAGCAGGAAACGGTTTGAGGCCTCCGGCTGGGAACCCCCATGCAGAAAGCCTCCCTTCCACCTGGTGCACCTATGGCTTCCCTGGCCTTGCATTGCCACACACACCACCCTCCAGACTGCTCACAGGCCTTAGGCTGTGGTGTAGCCAGCTGCTGCCAAGATCCTGTGGGTCACTGTGAGTCCCCGCTAGCTTTATCATGGACTCATGCTTCCCCCTCTCCCTTCCATCCCTGTAG
Seq C2 exon
GCGAGAAGCCCCACAAGTGCCAGGTGTGTGGCAAGGCATTCAGCCAGAGCTCCAACCTCATCACCCACAGCCGCAAGCACACAGGCTTCAAGCCCTTCGGCTGCGACCTGTGTGGAAAAGGCTTCCAGAGGAAGGTGGACCTCAGGCGGCACCGGGAGACGCAGCATGGGCTCAAGTGAACACCGCACCTCATTCGCGTGTGCAGTCATACAACACTACGGAGGGCAGCCTCCCCACTTGCCACCAGCCACTTCCGCAGATCTCTCTGGGGTGATACCTTTTCCCTTTCCTCCCTGGAACTGCCAGAGGAGATAAGTTACCTTTTCAAAGTCCAGCGTGGAGGGGGAACCGAATGACTCCCTGGGCAGAGGACTCGCCAAATAGGCTTCTTTACACCTGAAGACTCCAAGTGGAGAAGAAATCGGCTAAAATCTTCGGCCTGATAGTCCTTCCCATACCCAGACCTGTTCCACAGATAGAAAGCCCCTTGGGTTTCTTCCCTTCTCTTCCTGTCCAACCCCAGATACTTGTGTGGAAGAGGAGGAATCATCTCTCACAAGATAGATACATATTAATGTTTTTATCTGGAATGAAGAATGAGTGTTATTTTTTTCCTTCTGGGGACTTTGTTGACCCCTTTTTGTTGGGTGCTGCCTATAAAGCTTGGAGGAATTGTTTCTTGCGTTTGAAAATTGGTTCAGAAACTGATTTGGGAAGGGAATTTCATACTTTTGAAAATGACAAAAAATGCACTGTAGAGCCTGCCCAAAAAGAAGCAGAAGGAAAGTGGGCTTGGTGAGAAGAGATTCAAGGTTCTCCCTCCAGGAGACTTGTGAAGGCTTCTTCAGAAGAGTGGAAGCACATAGTAATGCCTTTGGGCAAGGCTGTCATCTGTTCACTCAGCAAATGTCTACTGACCACCAGTTACCATGGTATCAGGCACTATGCTAGGTACTAGGGAGCCAGAGAGTAGCGGCTCAGTCTCTGTCCCTGACCTGCATCTCCAAGTAGCTGGGTCTGTTCTTCCCCACAAAGGAATTCTGAGAAGATAAAACAGGATCTTGAAACTTCCCTTCAGGTCGTTTGGATTTTATCAAACATAAACGAAAAATAGCTGAATAGATACTTCAAAGATTCATGTATAAATTGTTTTTTTATTGTTAAGCTGATATTTTTAAGATGTCTAAGCTAGCAGGCATGTGGGAATGAAGGCTCTGTCTTCAACTCTTTTGAACCCTCCATGTGTACCACAGAGGGAAAAAAAGTGATATTTTTACTTTGATGTAAATGTTTTTAGATCTTCTGGAGTGTATTATGTTTGTTAATACGTATTTATTAGAGTGATGTTTTAAGTTAATAAAGTATTAAGACTCTTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000016723:ENSBTAT00000022231:5
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),PF134651=zf-H2C2_2=PU(38.5=17.9)
A:
NA
C2:
PF134651=zf-H2C2_2=PD(57.7=25.0),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:
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]