General information for g8480.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Zinc transporter foi.
Parent gene
- The parent gene g8480 is located on chr_2: 30908350..30909470 (+ 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 | g8480 | g8480.t1 | TSS | g8480.t1 | 30904729 | 30904729 |
| chr_2 | g8480 | g8480.t1 | isoform | g8480.t1 | 30906423 | 30908569 |
| chr_2 | g8480 | g8480.t1 | exon | g8480.t1.exon1 | 30906423 | 30907891 |
| chr_2 | g8480 | g8480.t1 | cds | g8480.t1.CDS1 | 30906423 | 30907891 |
| chr_2 | g8480 | g8480.t1 | TTS | g8480.t1 | 30906620 | 30906620 |
| chr_2 | g8480 | g8480.t1 | exon | g8480.t1.exon2 | 30907957 | 30908362 |
| chr_2 | g8480 | g8480.t1 | cds | g8480.t1.CDS2 | 30907957 | 30908362 |
| chr_2 | g8480 | g8480.t1 | exon | g8480.t1.exon3 | 30908420 | 30908569 |
| chr_2 | g8480 | g8480.t1 | cds | g8480.t1.CDS3 | 30908420 | 30908569 |
Sequences
>g8480.t1 Gene=g8480 Length=2025
ATGGCGCATCGTCATTTAATGGCAGTGTGTGTTGTATGCTTATTATGTGCTGAACATTTA
CCATGTAAGCACGTTTTAGCGGCATCAACAACGAATATTATTAAATCCAAGGATGAAAGA
TGGTCATTAGAAACATCAACTGAAAATGATGCATTAGTATTACTTGCTGATGAAGTAGCA
GTTGAAAATATTTATGACAAAAGAAAAGGAAAAAATAAAGACGAAGAAAAAATGAGAGTA
AAACGTCATGCTGATCATTCAAATAGTCATAAACACCATCATATTGAATTGCCAGAAGTA
ACAAAAAATTATCTACAAAAAATATTCCTTCAATTTAATGAACAACAACAGCAACAACAA
TCAATGCAAATGAACATGAATGGATTTGAGAATATGATAGGACAATTAAAATTGAATCAT
ATATTTAATTCTTCTATTAATGATAAAATGTGTATGAATGAAGAGACTTTTCTAGATAAA
ATAACACATCATAATCACCACGAATTAGAGCATGAACATGAAGAAGAGGACCACGAACAT
GAACATCATGATCATCATATAGAAATTAGTACTGACAACATGCTTTCAATGTGTCCAATT
TTACTTTACTATGCAATTAATCGCGACATAAGTTCATGTTTGCATATTTCAAATTTTAGT
ATGTTAGATTTGAATGACGAAACGTCATCGCTGATAGTTATGGAAGATAGAAAACTTGTG
TGGCTCTATTCAACTTTAAGCATAATTCTTGTTAGCCTTTGTGGACTGTTTGGTGTTGCA
GTGATTCCCATTATGGAAAAACATTTTTATCATCACATATTGCAATTTTTAGTGGCACTT
GCTGTGGGCACACTTGCAGGCGATGCATTGCTTCATTTGCTTCCGCATGCTATGCTTCCG
CTCACAAATGATCAAGACTTACATCAAACTATGATGTATCGAGGTTTGGCAGCAGTTTTA
GGAATTGTATTTTTCTATTTCTTTGAACGATTCATGGTGATGATAATGGAATGGCGACAA
AAGAAAGAGAAACGTGAAAAACCTTCATCACGTGTTCGTGTAATGCGTGATCCAGAAACT
GTTTCCTTAAATGGTGCAAACATGACATGCAAACATAAATATTCCTCATACCCATATTGC
TACGATGAAATAGCCATGGAAACAAAGGACGATCATCATGAGCATCAACACATTGAGGAG
GAAGCAGTTGTAAATAATCACAAAGATCTCATCATAACATCCGCATCTGATATTAAAAAA
ATGAACGGATTAATTCATGATAATAGCAATGATGTTGATAATACTACACTGACATTATCT
ACAAGCTTGGATGATGGATCAATTGAAAGCAATGCGCTTTGTAACAATAATTCTAATAAA
CAGACTGGAAATCCTATTTCAAACACCACAACAAATTGTAAAACTACTGGAGAAAATCTA
CAAGAAGAAAATTATACAATTATTTTGAGAGAACACCAATCAAAACACCATGGACATTCG
CATACTCACGGACATGTTCATTCACCACCAGAATCATTATCAGCAGTAGCATGGATGGTT
ATTATGGGTGATGGACTACACAATTTTACTGATGGAATGGCAATTGGTGCAGCATTTTCA
AATAATATTGCTGGAGGATTTTCAACCGCAGTTGCTGTCTTCTGTCATGAACTTCCACAC
GAATTGGGAGATTTTGCAGTGTTATTGAAAGCTGGCATGAGTCCAAGGAAAGCTGTCTAT
TATAATCTTTTAAGCTCTGTTTTATGCTTTTTCGGAATGTGTGTCGGAATTATGATTGGT
GATACACCTGAAGCTTCTCAATGGATTTTTGCTGTCGCTGCCGGTCTCTTCATTTATATA
GCACTTGTTGATATGATGCCTGAATTGACATCTACACATGGAAAAGAAGAGAGTTGTATG
TTAACACAATGCTTTTTGCAATTTAGTGGCATGTGTACTGGATTCTTGTGTATGCTCTTG
ATTGCTTTATACGAACATGATCTCAAGGAAATATTTTCGTCTTAA
>g8480.t1 Gene=g8480 Length=674
MAHRHLMAVCVVCLLCAEHLPCKHVLAASTTNIIKSKDERWSLETSTENDALVLLADEVA
VENIYDKRKGKNKDEEKMRVKRHADHSNSHKHHHIELPEVTKNYLQKIFLQFNEQQQQQQ
SMQMNMNGFENMIGQLKLNHIFNSSINDKMCMNEETFLDKITHHNHHELEHEHEEEDHEH
EHHDHHIEISTDNMLSMCPILLYYAINRDISSCLHISNFSMLDLNDETSSLIVMEDRKLV
WLYSTLSIILVSLCGLFGVAVIPIMEKHFYHHILQFLVALAVGTLAGDALLHLLPHAMLP
LTNDQDLHQTMMYRGLAAVLGIVFFYFFERFMVMIMEWRQKKEKREKPSSRVRVMRDPET
VSLNGANMTCKHKYSSYPYCYDEIAMETKDDHHEHQHIEEEAVVNNHKDLIITSASDIKK
MNGLIHDNSNDVDNTTLTLSTSLDDGSIESNALCNNNSNKQTGNPISNTTTNCKTTGENL
QEENYTIILREHQSKHHGHSHTHGHVHSPPESLSAVAWMVIMGDGLHNFTDGMAIGAAFS
NNIAGGFSTAVAVFCHELPHELGDFAVLLKAGMSPRKAVYYNLLSSVLCFFGMCVGIMIG
DTPEASQWIFAVAAGLFIYIALVDMMPELTSTHGKEESCMLTQCFLQFSGMCTGFLCMLL
IALYEHDLKEIFSS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g8480.t1 | Coils | Coil | Coil | 669 | 674 | - |
| 2 | g8480.t1 | PANTHER | PTHR12191 | SOLUTE CARRIER FAMILY 39 | 63 | 668 | 2.2E-129 |
| 1 | g8480.t1 | Pfam | PF02535 | ZIP Zinc transporter | 239 | 662 | 1.6E-84 |
| 19 | g8480.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 27 | - |
| 20 | g8480.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 5 | - |
| 21 | g8480.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 6 | 17 | - |
| 28 | g8480.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 18 | 27 | - |
| 18 | g8480.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 28 | 239 | - |
| 23 | g8480.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 240 | 262 | - |
| 12 | g8480.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 263 | 273 | - |
| 22 | g8480.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 274 | 295 | - |
| 15 | g8480.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 296 | 314 | - |
| 27 | g8480.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 315 | 335 | - |
| 14 | g8480.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 336 | 578 | - |
| 25 | g8480.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 579 | 599 | - |
| 16 | g8480.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 600 | 604 | - |
| 26 | g8480.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 605 | 623 | - |
| 13 | g8480.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 624 | 643 | - |
| 24 | g8480.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 644 | 664 | - |
| 17 | g8480.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 665 | 674 | - |
| 10 | g8480.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 27 | - |
| 9 | g8480.t1 | SignalP_GRAM_POSITIVE | SignalP-TM | SignalP-TM | 1 | 27 | - |
| 4 | g8480.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 240 | 262 | - |
| 3 | g8480.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 269 | 291 | - |
| 5 | g8480.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 311 | 333 | - |
| 8 | g8480.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 578 | 600 | - |
| 7 | g8480.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 605 | 623 | - |
| 6 | g8480.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 644 | 666 | - |
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 K14716 (solute carrier family 39 (zinc transporter), member 10)
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.
