General information for g4246.t10
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Krueppel homolog 2.
Parent gene
- The parent gene g4246 is located on chr_2: 607620..608312 (+ 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_2 | g4246 | g4246.t10 | TSS | g4246.t10 | 605910 | 605910 |
| chr_2 | g4246 | g4246.t10 | isoform | g4246.t10 | 605991 | 608312 |
| chr_2 | g4246 | g4246.t10 | exon | g4246.t10.exon1 | 605991 | 606003 |
| chr_2 | g4246 | g4246.t10 | exon | g4246.t10.exon2 | 606378 | 606558 |
| chr_2 | g4246 | g4246.t10 | cds | g4246.t10.CDS1 | 606404 | 606558 |
| chr_2 | g4246 | g4246.t10 | exon | g4246.t10.exon3 | 606744 | 606993 |
| chr_2 | g4246 | g4246.t10 | cds | g4246.t10.CDS2 | 606744 | 606993 |
| chr_2 | g4246 | g4246.t10 | exon | g4246.t10.exon4 | 607357 | 607490 |
| chr_2 | g4246 | g4246.t10 | cds | g4246.t10.CDS3 | 607357 | 607490 |
| chr_2 | g4246 | g4246.t10 | exon | g4246.t10.exon5 | 607568 | 608312 |
| chr_2 | g4246 | g4246.t10 | cds | g4246.t10.CDS4 | 607568 | 607796 |
| chr_2 | g4246 | g4246.t10 | TTS | g4246.t10 | 608307 | 608307 |
Sequences
>g4246.t10 Gene=g4246 Length=1323
ATTATTCAATATTATAATACACGATAAAATATAGAAAAAATGAGCGATAGTAATTCGACA
GATAATGAAAATCAGCCGCGTGGAATTGAAGCAGTCAAGAATCACATGCTAGAAAATAAG
ATCGAAACTGCATTATGGCTTTCGAGAGTTCTATCAATAGTATTTGCAATCGGCTATCTT
ATTCCTATTTTTGGATCATCTCAAAGTGCGTTTTATAAAGTATTAATTGCTAATGCAATC
ACAAGCGCCCTTCGATTACACCAACGATTGCCGCAAATTCAATTTACAAAGGAATTCTTA
GCATTGCTTTTGATAGAGGATTCATGTCATTATCTATTTTTTTCACTGATATTCCTCTAT
GTGCAGCCTGTTCTCTTAGTTTTGTTCCCAGTAGTTCTTTTTGCCGTTCTTCATTCAGCG
AGTTACTCATTAAAAATGCTTGATTTACTCGGTCAAAACTCTTGGTGGGGTGCGAGATTA
TTGATTTCACTTGTAGAATTTCAACAAAGAAACATTTTGAGATTGATTGCCTTTTCAGAA
ATTTTCTTAATGCCTGTCGCAATAATCTCAACATTTACTGGTCTTATGACACCATTCATT
TATTATCATTTTTTGACTCTTCGTTATTCATCTCGTCGTAATCCACATACCCGAAATATG
TTCCACGAACTGAGATTGGCAACAGAAAATATTGCAAATAATCCTAAAGCACCTCCAATT
ATTGGAAAAGTATTGCATGGAGCTGTTAGATTGATTTCACGCCTTGCTCCGGCTCAAATA
CCACCACAACAACAACACGCCCAGTAAAATATTTTTCCTTCAAAAAAGTTTTTTTTAATT
ATTTAACGGGTTTAATTCTGTTTCGTCTTATTTGGTAAAATGGATCATTTTTTTGTAGTG
TTTTTTTCTATTTTATTATAATACATTATATATTATTGATAAACATATTTTAATGTCATC
ATAATATGTTTAATTAGAGTTTTTTGCGGTATTAAATTTTAATATTACTCGTCTCTTGTG
AATTATTCACATACATACATAAAAAATTTTTCGTTGACATGCACATACATAAAACTTACA
TATATATATATATTGAAGAAATAGTAACAATTGTTTAAACAATTTAATTCAGAAACAAAA
ATTGTTTCAAAAATAAAAGACAAACGTGAATGTTTTGAAATAATTTGCATCAATTGAAAT
TTTTGTTTCCCAATAAATATTTGTTTTTATACTCTTATTCACAATTTGTTTTTTAATGTG
CAATTGTAATAAAATTTCAATTTATCAAATAAAAATTTTCAAAAAAATACTCTTAATTAA
ATG
>g4246.t10 Gene=g4246 Length=255
MSDSNSTDNENQPRGIEAVKNHMLENKIETALWLSRVLSIVFAIGYLIPIFGSSQSAFYK
VLIANAITSALRLHQRLPQIQFTKEFLALLLIEDSCHYLFFSLIFLYVQPVLLVLFPVVL
FAVLHSASYSLKMLDLLGQNSWWGARLLISLVEFQQRNILRLIAFSEIFLMPVAIISTFT
GLMTPFIYYHFLTLRYSSRRNPHTRNMFHELRLATENIANNPKAPPIIGKVLHGAVRLIS
RLAPAQIPPQQQHAQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g4246.t10 | PANTHER | PTHR12703:SF4 | TRANSMEMBRANE PROTEIN 33 | 3 | 253 | 4.5E-62 |
| 3 | g4246.t10 | PANTHER | PTHR12703 | TRANSMEMBRANE PROTEIN 33 | 3 | 253 | 4.5E-62 |
| 1 | g4246.t10 | Pfam | PF03661 | Transmembrane protein 33/Nucleoporin POM33 | 12 | 244 | 1.4E-95 |
| 9 | g4246.t10 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 29 | - |
| 14 | g4246.t10 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 30 | 51 | - |
| 11 | g4246.t10 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 52 | 56 | - |
| 17 | g4246.t10 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 57 | 74 | - |
| 8 | g4246.t10 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 75 | 85 | - |
| 18 | g4246.t10 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 86 | 108 | - |
| 13 | g4246.t10 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 109 | 113 | - |
| 16 | g4246.t10 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 114 | 131 | - |
| 10 | g4246.t10 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 132 | 142 | - |
| 19 | g4246.t10 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 143 | 163 | - |
| 12 | g4246.t10 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 164 | 168 | - |
| 15 | g4246.t10 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 169 | 191 | - |
| 7 | g4246.t10 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 192 | 255 | - |
| 4 | g4246.t10 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 32 | 54 | - |
| 5 | g4246.t10 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 103 | 125 | - |
| 6 | g4246.t10 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 168 | 190 | - |
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:0016021 | integral component of membrane | CC |
KEGG
Orthology
- This transcript has been annotated with K20724 (transmembrane protein 33)
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. There were no conditions that were differentially expressed