General information for g9716.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Zinc transporter 1.
Parent gene
- The parent gene g9716 is located on chr_1: 4783787..4784987 (+ 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 | g9716 | g9716.t4 | isoform | g9716.t4 | 4778261 | 4784451 |
| chr_1 | g9716 | g9716.t4 | exon | g9716.t4.exon1 | 4778261 | 4778983 |
| chr_1 | g9716 | g9716.t4 | exon | g9716.t4.exon2 | 4781746 | 4781943 |
| chr_1 | g9716 | g9716.t4 | cds | g9716.t4.CDS1 | 4781767 | 4781943 |
| chr_1 | g9716 | g9716.t4 | exon | g9716.t4.exon3 | 4782024 | 4782813 |
| chr_1 | g9716 | g9716.t4 | cds | g9716.t4.CDS2 | 4782024 | 4782813 |
| chr_1 | g9716 | g9716.t4 | exon | g9716.t4.exon4 | 4782887 | 4783071 |
| chr_1 | g9716 | g9716.t4 | cds | g9716.t4.CDS3 | 4782887 | 4783071 |
| chr_1 | g9716 | g9716.t4 | exon | g9716.t4.exon5 | 4783549 | 4783630 |
| chr_1 | g9716 | g9716.t4 | cds | g9716.t4.CDS4 | 4783549 | 4783630 |
| chr_1 | g9716 | g9716.t4 | exon | g9716.t4.exon6 | 4783693 | 4784451 |
| chr_1 | g9716 | g9716.t4 | cds | g9716.t4.CDS5 | 4783693 | 4783787 |
| chr_1 | g9716 | g9716.t4 | TTS | g9716.t4 | 4784948 | 4784948 |
| chr_1 | g9716 | g9716.t4 | TSS | g9716.t4 | NA | NA |
Sequences
>g9716.t4 Gene=g9716 Length=2737
TTTTATTTAATTGCAACATATTTGTTGATTTCAAACAGTAAAATACATCCATGTAAAAAT
TTCAAAATTTACAACAGTGACATGAATTCAGCCATTTTATTTCCAATCTACTCATTCGAT
TTTTAAGTTTTTGCGAGCAAGTCATTTGATTTTTAAAAGAACGTGAAAATGGTGGTAAAT
AAATAAGAACAATGAATCTTATAAAAATGAGAACAAAGAAGTAGGTCTGTGAATTCGCGT
AAAATTTGAGTGAAAATTTCTCTCTCTCTTTCATACAATTTAATGAAAAGATACATTGAA
AATCTATAGTAAAGTGATAATAGCTTTTAAGTGAACGAGAGAGGAAGAGAGAGACAAGAC
GAAAGGAAGAAGTATAAAAAATATTCGCACGGCACCAAACAGTGAGAGAGTAAAAAAGAA
TAAAATATTGTCATTAATATAAGTTTTTATATCGAAAAACGATTGAAATTGAAACAAAGA
CAGAAAAACAGTAGTGTGAAAAGAGTGAACACAAAAAGATTAATTTATCATAGCAGTCGG
GAAATGCAAAATAAATAAATCCAGTGTTACAAAAAATCTAGTCATACTCGTTCGCTATCA
AAAAACAGAGTTTTAATATACAAATTTATTATTTTCGTTCAAATTTATATAAATTTTGAC
AATCAATTAACTCGAGAGTGCTACTATAATAAGATAATAGCAAATTCCAGAAAAAGTCCA
AAGAATAATAAATAAACAACAAAAATGGGGAAATTTAGTGGTAAAAAATGTCGATTACTC
TCGGTCATGCTTCTCACAATCAGCTTCTTTTTTGTGGAAATTATAACTGGTTATGTGACG
AATTCAATGTCATTAGTAGCCGATTCATTTCATATGTTGGGAGATATTGCAGCTCTAGTC
ATTTCATTTCTCTCAGTGAAGATGTCACCGAAAAAGTGGAGTAAAAATACATTTGGATGG
GCACGTGCTGAAGTCTTGGGAGCATTAGTGAATGCTGTTTTTCTTGTCGCACTGTGTTTC
AGTATAACAGTTGAATCGATCAAGCGATTCATTGATCTGGAAGAAATACATCATCCTGAA
AATGTGCTCATTGTTGGATTCATTGGACTTTTAGTGAATCTTGTAGGTCTTGTTTTACTT
TATGATGGCGGTCATCATGGTCATTCACATGGTGGCCATACAAAACTTACGCAATTGTCT
TCTATCGATGATAATGAAAATGAAGATTACATTTTTGGTGACCCACCTAAAAAACCTCCA
TCACCGAAAAAACCTTCAGGTGGTCATGGACATTCACATAGTGCCGGTCAAATGAATATG
CGTGCAGCATTTCTTCACGTTCTCAGTGACGCACTTGGTTCAGTTATTGTTATGATTAGC
GCATTGATTATCAAGTACACTAATTGGGAATATAAATATTACTGTGATCCTGCCCTTTCG
ATGCTTCTTGTTGCACTTATTCTTCATTCTGTTTGGCCCTTACTTCGAGAATCTGCACTT
ATTTTGCTTCAAACTGTACCAACACACATCGAAGTTGACGCAATTCAACGTCGTTTATTG
GAACGTGTAGATGGTGTACTCGCTGTTCATGAATTTCACGTTTGGCAGTTGGCTGGAGAT
AGAATTATTGCTTCAGCTCACATTCGTTGTCGTAATTTAAGCGAATACATGAAATTAGCA
GAGAAAGTGAAAGAATTTTTCCATAATGAGGGTATTCACAGTACGACGATTCAGCCAGAA
TTTATTGAAATAGAAAATATGAATAGCTGTTCAGCATCAGATGGAATTTCGACAAGCTTG
AATATAAGTGGAAAAGAGGAAGGTTGTGTTCTAGATTGTCCAAATATTGATGAGAATTGT
GTCAAAGCAACTTGCTGCCAAAATACAAACAATAAGACTCATAGTCCAGCCGCTTCTCCA
TTTTTATGTCGTCAGCGACCAATAATGCGCGGCACAGAAAATGAAAACGGAGAAAAAGGC
TCATTGCTCGATAACGCACAAAGTATTCCAATCGTAATGTCTTCATCAAATCAAACAGCT
GTGGAGAACAACAGTAATAAGATTCTCGTTTGACCAATTCCATTTAATAGTGTAAAAAGT
AAAAAGATTAAAATGAATTTATGCAAAAAAAATATGACATCATCATCATCAGATTCATTT
AATTTATCAACAATTGAAAATTCGATGACGGCAAGAACGATAGTGGAGGTTGGCTGTGAT
ACAATGGGATTTGAAAATTCAAATAAACAATTTCATCGTATGACGATTTCAACATTATCT
CTTTAGACAAATTATTATAAAATGAATATTTAATGATAATCTGAGTTTTTTATGTGTATC
ACTTGCAAGCAACATAAGAAAGTAAAAAATACTTAACTTTATGTTCTTTTTTATAACAAA
CTTATTTAATGATTTCAATTGATTGAAAAAGAGATAAATATCCCATTTTTAAATCAGCAT
AGTTTTAAGTTTAGATAAAACGAAAAATATCTATAATATAATAGAAATGGAAAACTATCC
TACTATTCATTAAAATACATTTAGTAGTAATTTAATTTTTTTTATCTTTTATAATACGAT
TTATATAGCAAAAACAAGAAAGAAATCAAGACTTTATTGTCAAATCTCATGAATGAATGT
CTTTTGGAAAAAGTGAAAATAAACTTTTTTAAATTGATTTTTTCGCCAAAGATTTTTCCA
CACCGAAGAACTTTTTTATCTTTTAACATTTAATAAA
>g9716.t4 Gene=g9716 Length=442
MGKFSGKKCRLLSVMLLTISFFFVEIITGYVTNSMSLVADSFHMLGDIAALVISFLSVKM
SPKKWSKNTFGWARAEVLGALVNAVFLVALCFSITVESIKRFIDLEEIHHPENVLIVGFI
GLLVNLVGLVLLYDGGHHGHSHGGHTKLTQLSSIDDNENEDYIFGDPPKKPPSPKKPSGG
HGHSHSAGQMNMRAAFLHVLSDALGSVIVMISALIIKYTNWEYKYYCDPALSMLLVALIL
HSVWPLLRESALILLQTVPTHIEVDAIQRRLLERVDGVLAVHEFHVWQLAGDRIIASAHI
RCRNLSEYMKLAEKVKEFFHNEGIHSTTIQPEFIEIENMNSCSASDGISTSLNISGKEEG
CVLDCPNIDENCVKATCCQNTNNKTHSPAASPFLCRQRPIMRGTENENGEKGSLLDNAQS
IPIVMSSSNQTAVENNSNKILV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g9716.t4 | Gene3D | G3DSA:1.20.1510.10 | - | 8 | 148 | 3.4E-24 |
| 12 | g9716.t4 | Gene3D | G3DSA:1.20.1510.10 | - | 181 | 255 | 5.2E-9 |
| 2 | g9716.t4 | PANTHER | PTHR45820:SF2 | ZINC TRANSPORTER 63C, ISOFORM F | 1 | 407 | 1.1E-204 |
| 3 | g9716.t4 | PANTHER | PTHR45820 | FI23527P1 | 1 | 407 | 1.1E-204 |
| 1 | g9716.t4 | Pfam | PF01545 | Cation efflux family | 14 | 255 | 5.5E-53 |
| 14 | g9716.t4 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 11 | - |
| 25 | g9716.t4 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 12 | 31 | - |
| 18 | g9716.t4 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 32 | 36 | - |
| 26 | g9716.t4 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 37 | 56 | - |
| 16 | g9716.t4 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 57 | 76 | - |
| 23 | g9716.t4 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 77 | 95 | - |
| 19 | g9716.t4 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 96 | 114 | - |
| 22 | g9716.t4 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 115 | 133 | - |
| 15 | g9716.t4 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 134 | 194 | - |
| 24 | g9716.t4 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 195 | 218 | - |
| 20 | g9716.t4 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 219 | 229 | - |
| 21 | g9716.t4 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 230 | 247 | - |
| 17 | g9716.t4 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 248 | 442 | - |
| 9 | g9716.t4 | SUPERFAMILY | SSF161111 | Cation efflux protein transmembrane domain-like | 7 | 256 | 4.84E-50 |
| 10 | g9716.t4 | SUPERFAMILY | SSF160240 | Cation efflux protein cytoplasmic domain-like | 264 | 334 | 9.55E-5 |
| 13 | g9716.t4 | TIGRFAM | TIGR01297 | CDF: cation diffusion facilitator family transporter | 10 | 332 | 1.5E-69 |
| 7 | g9716.t4 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 12 | 31 | - |
| 6 | g9716.t4 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 41 | 58 | - |
| 5 | g9716.t4 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 77 | 99 | - |
| 4 | g9716.t4 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 114 | 133 | - |
| 8 | g9716.t4 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 194 | 216 | - |
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:0055085 | transmembrane transport | BP |
| GO:0016021 | integral component of membrane | CC |
| GO:0006812 | cation transport | BP |
| GO:0008324 | cation transmembrane transporter activity | MF |
KEGG
Orthology
- This transcript has been annotated with K14688 (solute carrier family 30 (zinc transporter), member 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.
