General information for g11405.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Hepatic leukemia factor.
Parent gene
- The parent gene g11405 is located on chr_1: 16009328..16018020 (- 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_1 | g11405 | g11405.t3 | TTS | g11405.t3 | 16006401 | 16006401 |
| chr_1 | g11405 | g11405.t3 | isoform | g11405.t3 | 16006473 | 16018020 |
| chr_1 | g11405 | g11405.t3 | exon | g11405.t3.exon1 | 16006473 | 16008281 |
| chr_1 | g11405 | g11405.t3 | cds | g11405.t3.CDS1 | 16008195 | 16008281 |
| chr_1 | g11405 | g11405.t3 | exon | g11405.t3.exon2 | 16008346 | 16008584 |
| chr_1 | g11405 | g11405.t3 | cds | g11405.t3.CDS2 | 16008346 | 16008584 |
| chr_1 | g11405 | g11405.t3 | exon | g11405.t3.exon3 | 16008802 | 16009060 |
| chr_1 | g11405 | g11405.t3 | cds | g11405.t3.CDS3 | 16008802 | 16009060 |
| chr_1 | g11405 | g11405.t3 | exon | g11405.t3.exon4 | 16009328 | 16009473 |
| chr_1 | g11405 | g11405.t3 | cds | g11405.t3.CDS4 | 16009328 | 16009473 |
| chr_1 | g11405 | g11405.t3 | exon | g11405.t3.exon5 | 16016992 | 16018020 |
| chr_1 | g11405 | g11405.t3 | cds | g11405.t3.CDS5 | 16016992 | 16017100 |
| chr_1 | g11405 | g11405.t3 | TSS | g11405.t3 | 16018043 | 16018043 |
Sequences
>g11405.t3 Gene=g11405 Length=3482
GACTTGTTAAGAATAATTTTGAAAAAGTTTAATTTAATAATTTAAATAGAGTTTAATTTA
AAAGCAAAAAATCTTATGAGTGTTCTAATACTCTTGAATTCAATGTTTTAATTTTAATGA
CAAGTGATCAATTTCAAATCAATTGATTTTCGAGTGCGAAAATTTTTCTCAAAAAAATTA
AAAAAATTGTAAAAAAAATGTCGTACTAGATTTTCACTATGTGTAATAAATTGACAAGTG
TGAGTGAATTTTCAGAATTTTCTTCCAATAATTTCACAAAAAAATTGTAAATATTTCATA
TATTGCACTTAAAATTATTCTTATCAGTAATCAAAAGAAAATCGTCATCTTTCAGAATTG
CTTTTAAACAATATTACACACTCAATCAAGTTACAATAGTCCGATTAAAATTGTGATTTT
CGTACTGATTTATTATGGAAAAGTTTTAAGTGAAGAGCAAAGCGAGAGCATTAAAGAAGG
AAGAAAATTTTTCGGTTGTGATAATTGGATTATCCTTTACCAAGTGGAACTTTATACATA
CATATATATACATTGTTAAGAATTTAAACGAAAAAACACTTAACTAAACGCTCATTCATG
TCATTTTGTTAAATAAAAAAAAGTGCAATAATAATTGTTATAAAAAAGTTAAATATTTTA
AATATACTAAATAATAATAAAAATTATAATTAAAGAAATTGATAGTTAAACTATCGTTAA
ACAGTAAGCAAAGAGCTCTAAATACAGTTCATCACCATATAGTGCTATTAGTAAATTCAA
AATCAATTAGGACTTTAACTGAACATTGTTAACTAGTTGATAAAAAATTTCCCATACACT
CTATTCAACCGAACATTCGAATTGTTTAGTAAAAAATTGGAGGTTCAAAGATTAAAAAAT
ATAACTTCAAAAGTGAAAACATGAGTGACAGAGCATCATCGCCAAGCTTAATTGAATCAG
GATTGAATGGATTAAAATCATTAATTGGAGGAACAAGAGACAATTATCCTTTGATCAGCG
GGACAAATGGAAAAACAAGTAATAAAGACATTTGCGGTGACGATAAACATAAAGAAGATG
GTGATCCCTGGAATGTGGAAGCACAAGCAGCATTTTTAGGACCGAACCTGTGGGATAAAA
CATTACCATACGACACAAATCTAAAAGTACATCAATACGCTGATTTGGATGAATTTTTAT
CGGAAAATGGTATACCAGTCGATGGCTTAAATGGCTTACCGAGCAGTCATTTGGGACATT
CAGCGAGTATGGGTAATGGAAGCGGTGGCGGAGGTGGTGGTGTAACAAATAATCGCAACG
ATTTGGGCCTCTCACTAGGACTAAGTGCAGTTACAAAGCGAGAAAGATCTCCTTCACCAT
CTGATTGTATGAGTCCCGATACTATAAACAATCCACCTTCTCCTGCAGACTCCACATTTT
CAATGTCTTCTTCACGCGATTTTGATCCACGTACGCGTGCATTCTCGGATGAAGATTTAA
AACCGCAACCAATGATAAAAAAGTCTCGCAAGCAATTCGTACCCGATGAAATGAAAGATG
ACAAATACTGGGCGCGCAGACGAAAGAACAACATGGCCGCCAAGCGCTCGCGGGATGCTC
GCCGCATGAAAGAAAATCAAATAGCGCTTCGAGCCGGATATTTAGAAAAAGAAAACATGA
ATTTGCACCGTGAAGTTGAGCAGCTAAAACAAGAAAATATGGAGCTAAGAGCGCGTTTAT
CAAAATATCAAGAAGTGTAATTAAGCGTTACTTTTGGAGAAAAATCATAATTGAAAGAGA
GAAAAAGTAAAACAACAATATTAATGTTATATGTCGAATGTTATAAGACTTAATTTTGCT
ACAAAGCTTTTCAGTTGATAACAAGAAAAAAAATTGAAAAAAAAAATCAAAATTAAGATG
AGATGAAGACGTAAAAGCTTCGGGAGCTTAAAACCTTTTTAAAACCACCCACGTTAAAAA
AAATTAATCTTTAGATTTTTTTGTTTGTAAATTTTAGTTCTTTTCTAAATTTATTCTACT
AATTCTTCCCTATCTGTCGTTTTATTTTGTTGTAAATTGCAGAGGCAAACACAACTAATG
TGTAGTGTTAAACTATTTGTATGTACATCAATCGATTATTTTTGTTATTAGAGTTACCCA
ATTAAGTAGAAATGAAGTTGGTCAATGGGATTTTCGCATAAGTTATTGAACATGAAAAAA
GAAAAAGTAAAAAATTTAATTCTACCAAGTTACTACGCAATGGTCATGTCCCACACAATT
AAGAAAGCATAATTTACTTTTAGTATAGCGCATAATAGAGAAATGACTATCTATTATTAA
GAAAGGGGCATAATAATGCATAACTTGATTGAACAATAAATTTTAACACACACTCTTCTT
GACAACAGTCCCTTTTATTTAGATTTTTCCTATATTATTTTTCAATTCAAATAATTTTTC
GAGAGAAATTTAAGTTGTACATCACTCTAAAAAAATTAATACAGTGAAATCCAAAAAGTA
AAAAATGAAGAAAACAAATGAAAATTATTTTGTAGTGTTTAAAATTTACTCGAGATAAAA
GAAGGAAAAAAGAAAAATCATTTTCATTAACTGCCACATACAATTTATTTGTCACAAAAA
AGAATATATTATGGTAGAGAGCAATCATCATTTTAAATCATGAATTTTTCAGACACTTTT
CTTCTTCATTTCGGTTTAGAGTCTCATAATTATTTGTATGATTATGTGGCAATAGTTTAA
ATGTCTAAGTAAAAAATCCGCTTAATTTAGTGCATCCATACATATTTCTTCCTCTTTTCT
GTTCCTCGATCATCATCTTTTTTTTGTTGTACGAAACTGAATAATAAAGAAAATTTGTTT
TATTGTTTAGAAAAATTCACACGAACAAAAAAAATAATAAAAATTTAAAACTGATGAAAA
GTTTTTCTGATATTTGATACCAAAGATGGAAAAACTTTTTTTTTCTCGGAGCAGATTGAA
TGAATTGTATTGAAATCAACGTCAGTTTCACGTACGATAGAAGAGATAAAGTCGTTTCTT
CTTTTTAAAAATAAAATAGAGTCTGATTATTTTGATTGATGCAAATGCATACGTTACTCA
TACATATACAATATATTATATTATAAAAAATGAGAAAAAAAATTAGCAGTTTTAAGCAGA
AAACAAGTAGTGATAGAATTTTTTTTTGAAAACTAAATAATATAGCATTCACACACGTTA
CGTACTAAAAACTATTTTAGATGAGAATTTTTTCTTTGACTTATTAAACAAAACGAGTTA
AAGTCCTATAGATGAAATAAATAAAACTTTTTTTTGTAGTGTAATTAAAAATTATTGTTT
GAAGGAAAAGTTATTATTGAGAAAAAAAAAACAAAACATGGTAAATAAAACTGGCTATGT
AGTATATTTGTTGGCAATTTTTAAGTTTTTTGTTTCAAATATAAGAAAAATATATGTTTC
TT
>g11405.t3 Gene=g11405 Length=279
MSDRASSPSLIESGLNGLKSLIGGTRDNYPLISGTNGKTSNKDICGDDKHKEDGDPWNVE
AQAAFLGPNLWDKTLPYDTNLKVHQYADLDEFLSENGIPVDGLNGLPSSHLGHSASMGNG
SGGGGGGVTNNRNDLGLSLGLSAVTKRERSPSPSDCMSPDTINNPPSPADSTFSMSSSRD
FDPRTRAFSDEDLKPQPMIKKSRKQFVPDEMKDDKYWARRRKNNMAAKRSRDARRMKENQ
IALRAGYLEKENMNLHREVEQLKQENMELRARLSKYQEV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g11405.t3 | CDD | cd14695 | bZIP_HLF | 212 | 271 | 1.68918E-31 |
| 6 | g11405.t3 | Coils | Coil | Coil | 245 | 279 | - |
| 5 | g11405.t3 | Gene3D | G3DSA:1.20.5.170 | - | 200 | 277 | 7.4E-19 |
| 9 | g11405.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 145 | 181 | - |
| 2 | g11405.t3 | PANTHER | PTHR11988 | THYROTROPH EMBRYONIC FACTOR RELATED | 39 | 279 | 5.5E-90 |
| 3 | g11405.t3 | PANTHER | PTHR11988:SF27 | GH27708P | 39 | 279 | 5.5E-90 |
| 1 | g11405.t3 | Pfam | PF07716 | Basic region leucine zipper | 212 | 265 | 3.4E-17 |
| 10 | g11405.t3 | ProSiteProfiles | PS50217 | Basic-leucine zipper (bZIP) domain profile. | 213 | 276 | 11.668 |
| 8 | g11405.t3 | SMART | SM00338 | brlzneu | 211 | 275 | 7.1E-8 |
| 4 | g11405.t3 | SUPERFAMILY | SSF57959 | Leucine zipper domain | 212 | 273 | 6.25E-17 |
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:0006357 | regulation of transcription by RNA polymerase II | BP |
| GO:0006355 | regulation of transcription, DNA-templated | BP |
| GO:0003700 | DNA-binding transcription factor activity | MF |
KEGG
Orthology
- This transcript has been annotated with K09057 (hepatic leukemia factor)
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.
