General information for g12156.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Phosphopantothenoylcysteine decarboxylase.
Parent gene
- The parent gene g12156 is located on chr_1: 21415778..21416829 (- 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 | g12156 | g12156.t1 | TTS | g12156.t1 | 21413550 | 21413550 |
| chr_1 | g12156 | g12156.t1 | isoform | g12156.t1 | 21413777 | 21415892 |
| chr_1 | g12156 | g12156.t1 | exon | g12156.t1.exon1 | 21413777 | 21413873 |
| chr_1 | g12156 | g12156.t1 | cds | g12156.t1.CDS1 | 21413777 | 21413873 |
| chr_1 | g12156 | g12156.t1 | exon | g12156.t1.exon2 | 21413939 | 21413980 |
| chr_1 | g12156 | g12156.t1 | cds | g12156.t1.CDS2 | 21413939 | 21413980 |
| chr_1 | g12156 | g12156.t1 | exon | g12156.t1.exon3 | 21414040 | 21414073 |
| chr_1 | g12156 | g12156.t1 | cds | g12156.t1.CDS3 | 21414040 | 21414073 |
| chr_1 | g12156 | g12156.t1 | exon | g12156.t1.exon4 | 21414129 | 21414212 |
| chr_1 | g12156 | g12156.t1 | cds | g12156.t1.CDS4 | 21414129 | 21414212 |
| chr_1 | g12156 | g12156.t1 | exon | g12156.t1.exon5 | 21414272 | 21414293 |
| chr_1 | g12156 | g12156.t1 | cds | g12156.t1.CDS5 | 21414272 | 21414293 |
| chr_1 | g12156 | g12156.t1 | exon | g12156.t1.exon6 | 21414362 | 21414407 |
| chr_1 | g12156 | g12156.t1 | cds | g12156.t1.CDS6 | 21414362 | 21414407 |
| chr_1 | g12156 | g12156.t1 | exon | g12156.t1.exon7 | 21414472 | 21414500 |
| chr_1 | g12156 | g12156.t1 | cds | g12156.t1.CDS7 | 21414472 | 21414500 |
| chr_1 | g12156 | g12156.t1 | exon | g12156.t1.exon8 | 21414577 | 21414724 |
| chr_1 | g12156 | g12156.t1 | cds | g12156.t1.CDS8 | 21414577 | 21414724 |
| chr_1 | g12156 | g12156.t1 | exon | g12156.t1.exon9 | 21414780 | 21414967 |
| chr_1 | g12156 | g12156.t1 | cds | g12156.t1.CDS9 | 21414780 | 21414967 |
| chr_1 | g12156 | g12156.t1 | exon | g12156.t1.exon10 | 21415084 | 21415554 |
| chr_1 | g12156 | g12156.t1 | cds | g12156.t1.CDS10 | 21415084 | 21415554 |
| chr_1 | g12156 | g12156.t1 | exon | g12156.t1.exon11 | 21415788 | 21415892 |
| chr_1 | g12156 | g12156.t1 | cds | g12156.t1.CDS11 | 21415788 | 21415892 |
| chr_1 | g12156 | g12156.t1 | TSS | g12156.t1 | 21416117 | 21416117 |
Sequences
>g12156.t1 Gene=g12156 Length=1266
ATGAACACGAAAAAAAACCTTTTAGTTGGTTGTACAGGCTCTATTGCAGCAATAAAGCTT
CCTGTTGTTCTTAATTTGTTAAAAAAACGAGATCCAACCTTTCAGATTCGAGTAATATTA
ACAGAACGAGCCAAACATTTTGTAAATATCAATGAAATCTCTACAATGGCAGAAGTGTTT
ACGGATCAAAGTGAATGGCATATTGCAAAAGGTCTAAATGAACAAAGTTTGCATCTTGAA
CTTGTACAATGGGCTGATATCTTCATTATTTCGCCTATGGACGCAAACACATTAGGAAAA
ATAAGTTCGGGCATTTGTGATAACCTGCTGACATGCGTAGCTCGCGCATGGGATCTGCAT
AAGCCACTTTTATTTTGTCCCGAAATGAATACAAAGATGTTTTTGCACCCCATAACTAGT
AAACAAATTGAGGAATTAAAAATTTATGGGTACTATGAACTTCCTTCAATATCTGAAACC
TTGTTGACTGATGCGAGTGGTGCGGGAGCCTTATCAGAGATCAACTACATTATCGACGCA
ATATTTAATCATGTTCAACAACTTCAACATCAGCAAATGCATCATTCGGGAGATAACGAT
TCAACGTTGGAACCATTTGAACAAAAATATAATCATCACTTACAACATAATCACGCGTCT
CAGAGCAGTACACCGTCGGTTAGTCCAAATAGTGTTGTTCAACATTTGACGGGATTTGTG
CAAGTAAAACAGCGAGCGCAGACGGGCAATCAAGCAAATAAGCCATTCACTTGTGACATA
TGTGGCGGCAAATTTTCACGTTACAGTTCTTTGTGGTCACATAAGACCCTTCATACTGGA
ATAAAAAAATTTTCCTGTAATATTTGTAGTGCAACTTTTGCCAAGGCTAACTATCTTAAC
AATCACAAAAGGCAGACTCACTCGGGAGAGAGGCCATATAGGTGTTCAACATGTGGTCAA
TCATTTTCTCAATCAACACATTTGAAGAATCATGAGCGCATCCATACAGGAGAAAAACCT
TTTTCTTGCGAGACGTGTCATAAGAATTTTGCTAGATATAGTACACTATGGAATCATCGT
CGAATTCATACTGGTGAAAAGCCCTACAAGTGCTCCTTTTGCTCGAGCGCCTTCAGTCAG
GCCACACATTTAAGAAAGCATGAAAAAGTTCATTTAGGAGTGAAACCCTACTCTTGTGAG
ATCTGTTCGAGCAGCTTTGCAGACCGTTTTGCTCTGACTAGGCATACAAAAACTCATCTC
AAGTAA
>g12156.t1 Gene=g12156 Length=421
MNTKKNLLVGCTGSIAAIKLPVVLNLLKKRDPTFQIRVILTERAKHFVNINEISTMAEVF
TDQSEWHIAKGLNEQSLHLELVQWADIFIISPMDANTLGKISSGICDNLLTCVARAWDLH
KPLLFCPEMNTKMFLHPITSKQIEELKIYGYYELPSISETLLTDASGAGALSEINYIIDA
IFNHVQQLQHQQMHHSGDNDSTLEPFEQKYNHHLQHNHASQSSTPSVSPNSVVQHLTGFV
QVKQRAQTGNQANKPFTCDICGGKFSRYSSLWSHKTLHTGIKKFSCNICSATFAKANYLN
NHKRQTHSGERPYRCSTCGQSFSQSTHLKNHERIHTGEKPFSCETCHKNFARYSTLWNHR
RIHTGEKPYKCSFCSSAFSQATHLRKHEKVHLGVKPYSCEICSSSFADRFALTRHTKTHL
K
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 23 | g12156.t1 | Gene3D | G3DSA:3.40.50.1950 | - | 1 | 193 | 4.4E-59 |
| 19 | g12156.t1 | Gene3D | G3DSA:3.30.160.60 | Classic Zinc Finger | 254 | 279 | 1.9E-8 |
| 18 | g12156.t1 | Gene3D | G3DSA:3.30.160.60 | Classic Zinc Finger | 280 | 308 | 6.0E-9 |
| 17 | g12156.t1 | Gene3D | G3DSA:3.30.160.60 | Classic Zinc Finger | 309 | 338 | 4.8E-17 |
| 22 | g12156.t1 | Gene3D | G3DSA:3.30.160.60 | Classic Zinc Finger | 339 | 364 | 8.3E-15 |
| 21 | g12156.t1 | Gene3D | G3DSA:3.30.160.60 | Classic Zinc Finger | 365 | 388 | 2.2E-12 |
| 20 | g12156.t1 | Gene3D | G3DSA:3.30.160.60 | Classic Zinc Finger | 389 | 421 | 2.7E-9 |
| 9 | g12156.t1 | PANTHER | PTHR24390 | ZINC FINGER PROTEIN | 177 | 336 | 9.7E-110 |
| 12 | g12156.t1 | PANTHER | PTHR24390:SF119 | ZINC FINGER PROTEIN 383 | 177 | 336 | 9.7E-110 |
| 8 | g12156.t1 | PANTHER | PTHR24390 | ZINC FINGER PROTEIN | 182 | 391 | 9.7E-110 |
| 11 | g12156.t1 | PANTHER | PTHR24390:SF119 | ZINC FINGER PROTEIN 383 | 182 | 391 | 9.7E-110 |
| 7 | g12156.t1 | PANTHER | PTHR24390 | ZINC FINGER PROTEIN | 327 | 419 | 9.7E-110 |
| 10 | g12156.t1 | PANTHER | PTHR24390:SF119 | ZINC FINGER PROTEIN 383 | 327 | 419 | 9.7E-110 |
| 1 | g12156.t1 | Pfam | PF02441 | Flavoprotein | 5 | 184 | 4.6E-38 |
| 6 | g12156.t1 | Pfam | PF00096 | Zinc finger, C2H2 type | 256 | 278 | 0.0057 |
| 2 | g12156.t1 | Pfam | PF13912 | C2H2-type zinc finger | 284 | 308 | 0.021 |
| 4 | g12156.t1 | Pfam | PF00096 | Zinc finger, C2H2 type | 313 | 335 | 6.6E-5 |
| 3 | g12156.t1 | Pfam | PF00096 | Zinc finger, C2H2 type | 341 | 363 | 0.0022 |
| 5 | g12156.t1 | Pfam | PF00096 | Zinc finger, C2H2 type | 397 | 419 | 0.0024 |
| 25 | g12156.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 5 | - |
| 26 | g12156.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 6 | 27 | - |
| 24 | g12156.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 28 | 421 | - |
| 28 | g12156.t1 | ProSitePatterns | PS00028 | Zinc finger C2H2 type domain signature. | 258 | 278 | - |
| 32 | g12156.t1 | ProSitePatterns | PS00028 | Zinc finger C2H2 type domain signature. | 286 | 307 | - |
| 30 | g12156.t1 | ProSitePatterns | PS00028 | Zinc finger C2H2 type domain signature. | 315 | 335 | - |
| 31 | g12156.t1 | ProSitePatterns | PS00028 | Zinc finger C2H2 type domain signature. | 343 | 363 | - |
| 29 | g12156.t1 | ProSitePatterns | PS00028 | Zinc finger C2H2 type domain signature. | 371 | 391 | - |
| 27 | g12156.t1 | ProSitePatterns | PS00028 | Zinc finger C2H2 type domain signature. | 399 | 419 | - |
| 44 | g12156.t1 | ProSiteProfiles | PS50157 | Zinc finger C2H2 type domain profile. | 256 | 283 | 12.632 |
| 40 | g12156.t1 | ProSiteProfiles | PS50157 | Zinc finger C2H2 type domain profile. | 284 | 312 | 15.022 |
| 43 | g12156.t1 | ProSiteProfiles | PS50157 | Zinc finger C2H2 type domain profile. | 313 | 340 | 18.098 |
| 41 | g12156.t1 | ProSiteProfiles | PS50157 | Zinc finger C2H2 type domain profile. | 341 | 368 | 16.249 |
| 39 | g12156.t1 | ProSiteProfiles | PS50157 | Zinc finger C2H2 type domain profile. | 369 | 396 | 14.752 |
| 42 | g12156.t1 | ProSiteProfiles | PS50157 | Zinc finger C2H2 type domain profile. | 397 | 421 | 11.344 |
| 37 | g12156.t1 | SMART | SM00355 | c2h2final6 | 256 | 278 | 0.046 |
| 35 | g12156.t1 | SMART | SM00355 | c2h2final6 | 284 | 307 | 0.0088 |
| 34 | g12156.t1 | SMART | SM00355 | c2h2final6 | 313 | 335 | 0.0012 |
| 33 | g12156.t1 | SMART | SM00355 | c2h2final6 | 341 | 363 | 0.085 |
| 38 | g12156.t1 | SMART | SM00355 | c2h2final6 | 369 | 391 | 0.004 |
| 36 | g12156.t1 | SMART | SM00355 | c2h2final6 | 397 | 419 | 0.0016 |
| 13 | g12156.t1 | SUPERFAMILY | SSF52507 | Homo-oligomeric flavin-containing Cys decarboxylases, HFCD | 4 | 188 | 2.09E-45 |
| 15 | g12156.t1 | SUPERFAMILY | SSF57667 | beta-beta-alpha zinc fingers | 265 | 322 | 2.32E-16 |
| 16 | g12156.t1 | SUPERFAMILY | SSF57667 | beta-beta-alpha zinc fingers | 321 | 378 | 8.61E-21 |
| 14 | g12156.t1 | SUPERFAMILY | SSF57667 | beta-beta-alpha zinc fingers | 363 | 415 | 1.13E-16 |
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:0003824 | catalytic activity | MF |
KEGG
Orthology
- This transcript has been annotated with K09230 (SCAN domain-containing zinc finger protein)
Pathway
This gene does not belong to any 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.
