General information for g3611.t17
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Heat shock factor.
Parent gene
- The parent gene g3611 is located on chr_3: 26742728..26747182 (- strand)
Gene structure
- The exon-intron structure of all isoforms are indicated below. CDS regions are colored in green. TSS and TTs that were predicted with CTR-Seq data are indicated in solid circle and squares, respectively. More specific data are shown in the table below.
| Chromosome | Gene | Transcript | Category | ID | Start | End |
|---|---|---|---|---|---|---|
| chr_3 | g3611 | g3611.t17 | isoform | g3611.t17 | 26744249 | 26747182 |
| chr_3 | g3611 | g3611.t17 | exon | g3611.t17.exon1 | 26744249 | 26744304 |
| chr_3 | g3611 | g3611.t17 | cds | g3611.t17.CDS1 | 26744251 | 26744304 |
| chr_3 | g3611 | g3611.t17 | exon | g3611.t17.exon2 | 26744553 | 26744798 |
| chr_3 | g3611 | g3611.t17 | cds | g3611.t17.CDS2 | 26744553 | 26744798 |
| chr_3 | g3611 | g3611.t17 | exon | g3611.t17.exon3 | 26744860 | 26745948 |
| chr_3 | g3611 | g3611.t17 | cds | g3611.t17.CDS3 | 26744860 | 26745948 |
| chr_3 | g3611 | g3611.t17 | exon | g3611.t17.exon4 | 26747078 | 26747182 |
| chr_3 | g3611 | g3611.t17 | cds | g3611.t17.CDS4 | 26747078 | 26747182 |
| chr_3 | g3611 | g3611.t17 | TSS | g3611.t17 | 26747196 | 26747196 |
| chr_3 | g3611 | g3611.t17 | TTS | g3611.t17 | NA | NA |
Sequences
>g3611.t17 Gene=g3611 Length=1496
ATGCATCCGATCGAGAGTGGAAATTTAGGTGTCCCTGCATTCTTGGCAAAATTATGGCGA
TTAGTTGAAGATTCTGATACAAACGAACTAATTTCTTGGAGTCAAGATGGCAAAAGTTTT
TTCATACAAAATCAAGCAAAATTTGCAAAAGAATTACTTCCTCTTAATTACAAGCACAAC
AATATGGCTAGTTTTATTCGACAGCTTAATATGTATGGCTTTCATAAAATAACTTCAATC
GACAATGGCGGTTTGAAATTTGATAAAGATGAAATGGAATTTTCTCATCCTTATTTTCAA
AAAGGTCATCCATATTTACTTGAGCATATTAAACGAAAGATTGCACATCCAAAACAACCG
GAAGCTGATAAAACAACTGTAACAAAAGTGGAGACTATGAATCGAGTTTTACATGAAGTC
AAAAATATGAGGGGTCGTCAAGACTCCTTGGATACTCGTTTCAGTGCTATGAAACAGGAG
AATGAAGCATTATGGCGTGAAGTCGCAATTTTACGACAAAAACATATGAAGCAACAACAA
ATTGTAAACAAATTAATACAATTTTTGGTAACAATTGTTCAACCAAATCGAGGTGGTCTT
GGAAGCGGTATTGGCAAACGTCGTTATCAGTTAATGATCAATGATGCACCACAAGCAAAA
GTTAAAAAAACAAATAATGGTCCAATTATAAGCGAACTTACTGAAGAATTGCTAGATGAT
GTTGAATCTGATCTAGATAACGATTCATGTAATTTTACAAACGTACAATCACCTGAATCA
GACACATGCAAAAATGAAGATAAAGAAACAACTTCTTTTGACAAATGTTTGGAAAGATGT
TTAGAAATTGACGATAATGTTGATGAAATTGATACAAACAATATGAAAGAATATTGCAAA
ACAATATTTAAAAAGAAACAAAATATTAATGACAAAGCAACAAGCTCAAAAATGGACAAG
CAACAAATAAAGAAAGAAGCTACTGAGAATGCTTCTATTGTTCAAAAATCTACGGGAAAA
AGTTTGCTCATACCATCAAAAGATAATAAAACTACAACAGATATTACATATAATATTATT
AACGCTGATAATGAGATGACCATAACAAATAATTCAGCTGGTATAACTAATACAAAACCA
AAAGAAGATGGATTAACTGAAACACAATATCAAAATTTCGATGATACCTCACAAAACACA
GATCTTCTAGATGATGAGGATTTATTTAAGTTTGTTGATAAAAAAGAGCAGCAACAGACT
TCTGGAGATGATTCGCTTCTAATAACAAAATATAATCGATCAAATTCAACAGACATCATG
GGGTTAAATTCACTAGAAGATTACTCTAATCATATAGACACCGTTCAATCTGATTTAGAT
TCGTTGAAAGATTTATTGCATAACGATGCTTATCAGTTGGATACAAATCAATTATTAGGG
AATGGTGCTGTTTACACTATGCCTTTTGGGAACTATGATGCTGATACTATTTCAAA
>g3611.t17 Gene=g3611 Length=498
MHPIESGNLGVPAFLAKLWRLVEDSDTNELISWSQDGKSFFIQNQAKFAKELLPLNYKHN
NMASFIRQLNMYGFHKITSIDNGGLKFDKDEMEFSHPYFQKGHPYLLEHIKRKIAHPKQP
EADKTTVTKVETMNRVLHEVKNMRGRQDSLDTRFSAMKQENEALWREVAILRQKHMKQQQ
IVNKLIQFLVTIVQPNRGGLGSGIGKRRYQLMINDAPQAKVKKTNNGPIISELTEELLDD
VESDLDNDSCNFTNVQSPESDTCKNEDKETTSFDKCLERCLEIDDNVDEIDTNNMKEYCK
TIFKKKQNINDKATSSKMDKQQIKKEATENASIVQKSTGKSLLIPSKDNKTTTDITYNII
NADNEMTITNNSAGITNTKPKEDGLTETQYQNFDDTSQNTDLLDDEDLFKFVDKKEQQQT
SGDDSLLITKYNRSNSTDIMGLNSLEDYSNHIDTVQSDLDSLKDLLHNDAYQLDTNQLLG
NGAVYTMPFGNYDADTIS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g3611.t17 | Coils | Coil | Coil | 445 | 465 | - |
| 8 | g3611.t17 | Gene3D | G3DSA:1.10.10.10 | winged helix repressor DNA binding domain | 9 | 113 | 3.8E-43 |
| 2 | g3611.t17 | PANTHER | PTHR10015 | HEAT SHOCK TRANSCRIPTION FACTOR | 6 | 219 | 2.6E-77 |
| 3 | g3611.t17 | PANTHER | PTHR10015:SF274 | HEAT SHOCK FACTOR PROTEIN 1 | 6 | 219 | 2.6E-77 |
| 4 | g3611.t17 | PRINTS | PR00056 | Heat shock factor (HSF) domain signature | 14 | 37 | 2.8E-17 |
| 6 | g3611.t17 | PRINTS | PR00056 | Heat shock factor (HSF) domain signature | 52 | 64 | 2.8E-17 |
| 5 | g3611.t17 | PRINTS | PR00056 | Heat shock factor (HSF) domain signature | 65 | 77 | 2.8E-17 |
| 1 | g3611.t17 | Pfam | PF00447 | HSF-type DNA-binding | 14 | 113 | 7.0E-32 |
| 10 | g3611.t17 | ProSitePatterns | PS00434 | HSF-type DNA-binding domain signature. | 53 | 77 | - |
| 11 | g3611.t17 | SMART | SM00415 | hsfneu3 | 10 | 113 | 4.0E-59 |
| 7 | g3611.t17 | SUPERFAMILY | SSF46785 | Winged helix DNA-binding domain | 10 | 113 | 5.98E-40 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0006355 | regulation of transcription, DNA-templated | BP |
| GO:0043565 | sequence-specific DNA binding | MF |
| GO:0003700 | DNA-binding transcription factor activity | MF |
KEGG
Orthology
- This transcript has been annotated with K09414 (heat shock transcription factor 1)
Pathway
- This transcript belongs to the following pathways
Expression
Transcript expression in Pv11 cells
TPM values are indicated as average +/- STDEV. 
Differential expression
Differentially expressed genes were identified with DESeq2 using the ‘run_DE_analysis.pl’ script from Trinity. Transcripts were determined as differentially expressed when (1) FDR < 0.05 (2) fold change > 2 (TPM calculated by RSEM). DE information and fold change between conditions are indicated in the plot below.
