General information for g10.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Zinc transporter ZIP3.
Parent gene
- The parent gene g10 is located on chr_3: 122731..123990 (+ 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 | g10 | g10.t1 | TSS | g10.t1 | 122514 | 122514 |
| chr_3 | g10 | g10.t1 | isoform | g10.t1 | 122731 | 123990 |
| chr_3 | g10 | g10.t1 | exon | g10.t1.exon1 | 122731 | 123856 |
| chr_3 | g10 | g10.t1 | cds | g10.t1.CDS1 | 122731 | 123856 |
| chr_3 | g10 | g10.t1 | exon | g10.t1.exon2 | 123920 | 123990 |
| chr_3 | g10 | g10.t1 | cds | g10.t1.CDS2 | 123920 | 123990 |
| chr_3 | g10 | g10.t1 | TTS | g10.t1 | 124265 | 124265 |
Sequences
>g10.t1 Gene=g10 Length=1197
ATGAATGCTACAGAATTAATTGCTACAAATTTAACAGATTTTATAAACATGAGTAGTGAT
GAACATGATGATCACGATCATACAGACACAAACATTGCAAAAGCTGTCACAATGGTTATT
TTGTTTATTATTTCAATGGGCTCAGGTCTCATTCCATTATTATTAGCGAGATTTTTTAAT
TGGTCTGATCCAAATCGAGATCCACGCACAAATTTAATAGTCTCATCTTTGTTATCATTT
GGCGGTGGTGCATTACTGTGTACAACATTCCTACATCTTCTTCCTGAAATTGAAGAAAAT
ATTCTTGAATTACAAAATGAAAATCTTTTGCCAAAATGGGAATTTTCAATTACAAATTTA
CTCATGGGAATTGGATTCTTTATAATTTATTTAGTAGAAGAACTCGTTCATCGATATTTA
AGAAAGCATCAAAAAAAGCAGCTACATGCACAAGATGCATTCATTCGTGGTTTAAGTGCA
AGAGATAGTTTAAAAAATGCTACATTACGACATGAACGCGAGAATAAAGAGTCGAAAAAT
GGCATAATCACTGTATCAACAGCAGACCTCATAGACAACGAACATATCGATCATTCACAT
CAACATAGCTGCCATCAACATCAACATTCGCATCAACATGATCATCATAATCATTCACAC
ATACCTGCAATTGATGGTGACGATTTAATTGTGTCTTCCATACGAGGTTTGCTCATTGTA
CTGGCACTTTCAGTACATGAGCTTTTTGAGGGCTTAGCTGTAGGTTTGGAACATGAGCCA
CAAAATGTTTGGTATATGTTCGGATCAGTGAGTGCCCATAAAGTTGTTATTGCTTTTTGC
ATTGGTGTAGAGTTGATGGTACACAAAACTCAGTCATGGTTAATGATTGTCTATATTTTC
ATCTATGCAATTGTATCACCACTTGGAATAGGAATAGGAATTTGGATAAGTAATGGAACT
GGCTCAGACAGCTTTATCATTGCATCAGTGATTCTGCAAGGATTAGCTTCGGGTACATTA
CTTTATGTGATTTTCTTTGAAATTTTATCAAAAAATAAAGAAGGAATTTGGCAATATGTT
GCTGTAGTCGTTGGTTATTTCCTTATGTTTGGCTTCAAATTTATTGCCGGTCATAGTCAT
TCACATTCACACGAAATTGTCGACAACGAAATTGATGATCATGATCATGATCACTGA
>g10.t1 Gene=g10 Length=398
MNATELIATNLTDFINMSSDEHDDHDHTDTNIAKAVTMVILFIISMGSGLIPLLLARFFN
WSDPNRDPRTNLIVSSLLSFGGGALLCTTFLHLLPEIEENILELQNENLLPKWEFSITNL
LMGIGFFIIYLVEELVHRYLRKHQKKQLHAQDAFIRGLSARDSLKNATLRHERENKESKN
GIITVSTADLIDNEHIDHSHQHSCHQHQHSHQHDHHNHSHIPAIDGDDLIVSSIRGLLIV
LALSVHELFEGLAVGLEHEPQNVWYMFGSVSAHKVVIAFCIGVELMVHKTQSWLMIVYIF
IYAIVSPLGIGIGIWISNGTGSDSFIIASVILQGLASGTLLYVIFFEILSKNKEGIWQYV
AVVVGYFLMFGFKFIAGHSHSHSHEIVDNEIDDHDHDH
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g10.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 199 | 218 | - |
| 2 | g10.t1 | PANTHER | PTHR11040:SF137 | ZINC TRANSPORTER ZIP1 | 27 | 373 | 6.7E-71 |
| 3 | g10.t1 | PANTHER | PTHR11040 | ZINC/IRON TRANSPORTER | 27 | 373 | 6.7E-71 |
| 1 | g10.t1 | Pfam | PF02535 | ZIP Zinc transporter | 33 | 371 | 3.8E-56 |
| 17 | g10.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 34 | - |
| 27 | g10.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 35 | 59 | - |
| 15 | g10.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 60 | 70 | - |
| 26 | g10.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 71 | 93 | - |
| 20 | g10.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 94 | 112 | - |
| 23 | g10.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 113 | 132 | - |
| 12 | g10.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 133 | 236 | - |
| 25 | g10.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 237 | 256 | - |
| 18 | g10.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 257 | 261 | - |
| 21 | g10.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 262 | 283 | - |
| 14 | g10.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 284 | 294 | - |
| 28 | g10.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 295 | 318 | - |
| 19 | g10.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 319 | 323 | - |
| 24 | g10.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 324 | 344 | - |
| 13 | g10.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 345 | 355 | - |
| 22 | g10.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 356 | 376 | - |
| 16 | g10.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 377 | 398 | - |
| 10 | g10.t1 | SUPERFAMILY | SSF103473 | MFS general substrate transporter | 38 | 375 | 5.23E-6 |
| 8 | g10.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 37 | 59 | - |
| 5 | g10.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 72 | 94 | - |
| 4 | g10.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 114 | 136 | - |
| 6 | g10.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 294 | 316 | - |
| 9 | g10.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 326 | 348 | - |
| 7 | g10.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 355 | 377 | - |
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:0016020 | membrane | CC |
| GO:0055085 | transmembrane transport | BP |
| GO:0046873 | metal ion transmembrane transporter activity | MF |
| GO:0030001 | metal ion transport | BP |
KEGG
Orthology
- This transcript has been annotated with K14709 (solute carrier family 39 (zinc transporter), member 1/2/3)
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.
