General information for g9948.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative ATP synthase subunit C lysine N-methyltransferase.
Parent gene
- The parent gene g9948 is located on chr_1: 6138816..6140365 (+ 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 | g9948 | g9948.t1 | TSS | g9948.t1 | 6136476 | 6136476 |
| chr_1 | g9948 | g9948.t1 | isoform | g9948.t1 | 6136641 | 6139675 |
| chr_1 | g9948 | g9948.t1 | exon | g9948.t1.exon1 | 6136641 | 6136919 |
| chr_1 | g9948 | g9948.t1 | cds | g9948.t1.CDS1 | 6136641 | 6136919 |
| chr_1 | g9948 | g9948.t1 | exon | g9948.t1.exon2 | 6136978 | 6137271 |
| chr_1 | g9948 | g9948.t1 | cds | g9948.t1.CDS2 | 6136978 | 6137271 |
| chr_1 | g9948 | g9948.t1 | exon | g9948.t1.exon3 | 6137533 | 6137556 |
| chr_1 | g9948 | g9948.t1 | cds | g9948.t1.CDS3 | 6137533 | 6137556 |
| chr_1 | g9948 | g9948.t1 | exon | g9948.t1.exon4 | 6137614 | 6138529 |
| chr_1 | g9948 | g9948.t1 | cds | g9948.t1.CDS4 | 6137614 | 6138529 |
| chr_1 | g9948 | g9948.t1 | exon | g9948.t1.exon5 | 6138602 | 6138721 |
| chr_1 | g9948 | g9948.t1 | cds | g9948.t1.CDS5 | 6138602 | 6138721 |
| chr_1 | g9948 | g9948.t1 | exon | g9948.t1.exon6 | 6138841 | 6139041 |
| chr_1 | g9948 | g9948.t1 | cds | g9948.t1.CDS6 | 6138841 | 6139041 |
| chr_1 | g9948 | g9948.t1 | exon | g9948.t1.exon7 | 6139590 | 6139675 |
| chr_1 | g9948 | g9948.t1 | cds | g9948.t1.CDS7 | 6139590 | 6139675 |
| chr_1 | g9948 | g9948.t1 | TTS | g9948.t1 | 6140263 | 6140263 |
Sequences
>g9948.t1 Gene=g9948 Length=1920
ATGGAGAATTTAATTGAAAATAAAAGCATGCAAGAACAGCCAAAAAGTTCAATAGGAAAA
ATTTTAATTGGTGTGACTGCAGTTAGTGCTGTAGGAATTTCAATAATTTGCTTTCCATTT
GTGTCACCTGCTTTTAGAAAATTCACTTTGCCTTTTATACCAGCAACAAATAATCAACTT
AAAAATATTCTCTCATTGTTGCCTAAAAATCCTACAAAAAATAACAGATTACTTGATATA
GGAAGTGGAGATGGTAGAATTGTCATATCTGCAGCAAAAAATGGTTACAAAGCTGATGGA
GTGGAATTAAATTATTGGCTGGTGCTTTATTCAAGACTGAATTCATTTCGATCTGGTACC
TTCAAAAAGACTCAATTTTTTAGAAAAGATCTATGGAAATTTCCGCTAACAAATTATAAT
TATTGTGTAATTTTTGGTGTTGAAGAGATGATGCCAAAATTAGAGAAGAAATTTGAGGAA
GAATTACAAAAAGGATCAAAAGTTATAGCATGTAGATTTCCTTTACCGAATAAAAAGCCG
GTGAAAATTCTATCAGATGGTGAAGTTGATACTAGTAATCGTGCTCATATAGAAAAAGAA
GGAGATAGTTTGAAAATTAAAAAAAATTTAGAGATGCCGACCTTATTGCAAGAAGATTAC
ACTCACGAAAAAGATGTGATCATTGCAAAAGTTGCAACAGGTTTAGGACTTTTTTTAATT
TCAACACTATGTGGTGTAATTCCATTTAAATTAGCAAAAATATTCAAATGGTCAGAGCCA
ATAGATCCAAATTCTAAAAGTGATAAAAAATCAGCAAAAGTAGTTTCAGTTCTATTATGT
TTCGGAGGAGGTGTGCTATTGGCAACGACATTTTTACATTTATTACCAGACGTGAATGGT
GAGATTGCAATTTTAAAAGCTGAAGGTCGCATTCCAGAATGGCATATAGAATTAGGAGAA
TTACTTATGATGCTTGGATTCTTTTTAATATATTTGATTGAAGAAATTGTGCATCATTAT
CTACATCGTTATCAAGCAAATTTAAAGAAAAAATCACAAACTAGCATTGCAACGATGAAA
CCTGAGGAAGAAAGTTATGCAGAAGCATTAATGCGTGGAATAACAGCTAGAAATAGTATA
CATCGACGTTTTTCAGATGTAAGTTGTATGAATCCCGTAAGCTGCATCAATCCAGCACAT
TCCCATTCACGTCGAGGTTCTACACATGATCTTTCAAATAATACAAAAACCTTATCAGCA
ACTGAGAAAGGTCAAATGGAAATGTCAGTTCACGAGAAAAATCATACGCATAATCATGGT
CATTCTCACGAAAACGGACATGGCCATGGTCACTCACATGCACTTCCTATACCACATACC
GAAGATGAAGATATGCTCGTTTCATCACTACGTGGATTACTAATTGTCCTTGCACTTTCA
ATTCACGAATTATTTGAGGGCTTTGCTGTTGGATTACAAAAGGACAGCACAGGAGTGTAT
TATATGTTTGCAGCTGTAGCAGCTCATAAATTTGTTATTTCATTTTGTATTGGAGTTGAA
TTGATGGTACAACGAACAAAAATTTGGCTAGCATTCGTTTACGTTTTTGTATACTCATTT
GTGAGTGCATTTGGAATTCTTATCGGAGGAATTCTAACGACAGGTGCAATGGGTGATCGT
CTACAAGTGCCTAATGTGATTCTTCAGGGTTTCGCTACCGGAACTCTATTATATGTGATT
TTCTTTGAAGTTCTCTCCAAAGATCGTTCGGGAATGCTTCCTTATTTGAGTGTATTTGCC
GGATTTGTCATTATGACTGGCCTACAATATATCGCTGGTGTAACTGAAAATCAAGGATTG
ACGGTTTTAATCCCAGACGATGTATTAACAACACTTGATCAAAATCATGCACATGGGTAA
>g9948.t1 Gene=g9948 Length=639
MENLIENKSMQEQPKSSIGKILIGVTAVSAVGISIICFPFVSPAFRKFTLPFIPATNNQL
KNILSLLPKNPTKNNRLLDIGSGDGRIVISAAKNGYKADGVELNYWLVLYSRLNSFRSGT
FKKTQFFRKDLWKFPLTNYNYCVIFGVEEMMPKLEKKFEEELQKGSKVIACRFPLPNKKP
VKILSDGEVDTSNRAHIEKEGDSLKIKKNLEMPTLLQEDYTHEKDVIIAKVATGLGLFLI
STLCGVIPFKLAKIFKWSEPIDPNSKSDKKSAKVVSVLLCFGGGVLLATTFLHLLPDVNG
EIAILKAEGRIPEWHIELGELLMMLGFFLIYLIEEIVHHYLHRYQANLKKKSQTSIATMK
PEEESYAEALMRGITARNSIHRRFSDVSCMNPVSCINPAHSHSRRGSTHDLSNNTKTLSA
TEKGQMEMSVHEKNHTHNHGHSHENGHGHGHSHALPIPHTEDEDMLVSSLRGLLIVLALS
IHELFEGFAVGLQKDSTGVYYMFAAVAAHKFVISFCIGVELMVQRTKIWLAFVYVFVYSF
VSAFGILIGGILTTGAMGDRLQVPNVILQGFATGTLLYVIFFEVLSKDRSGMLPYLSVFA
GFVIMTGLQYIAGVTENQGLTVLIPDDVLTTLDQNHAHG
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 15 | g9948.t1 | Gene3D | G3DSA:3.40.50.150 | Vaccinia Virus protein VP39 | 47 | 196 | 1.2E-28 |
| 14 | g9948.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 430 | 452 | - |
| 2 | g9948.t1 | PANTHER | PTHR11040:SF137 | ZINC TRANSPORTER ZIP1 | 223 | 609 | 2.1E-66 |
| 3 | g9948.t1 | PANTHER | PTHR11040 | ZINC/IRON TRANSPORTER | 223 | 609 | 2.1E-66 |
| 1 | g9948.t1 | Pfam | PF02535 | ZIP Zinc transporter | 230 | 608 | 1.2E-55 |
| 17 | g9948.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 20 | - |
| 29 | g9948.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 21 | 41 | - |
| 25 | g9948.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 42 | 226 | - |
| 34 | g9948.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 227 | 251 | - |
| 20 | g9948.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 252 | 271 | - |
| 30 | g9948.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 272 | 294 | - |
| 22 | g9948.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 295 | 313 | - |
| 33 | g9948.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 314 | 333 | - |
| 16 | g9948.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 334 | 472 | - |
| 31 | g9948.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 473 | 492 | - |
| 21 | g9948.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 493 | 497 | - |
| 28 | g9948.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 498 | 519 | - |
| 18 | g9948.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 520 | 530 | - |
| 32 | g9948.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 531 | 554 | - |
| 24 | g9948.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 555 | 565 | - |
| 27 | g9948.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 566 | 585 | - |
| 19 | g9948.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 586 | 591 | - |
| 26 | g9948.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 592 | 612 | - |
| 23 | g9948.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 613 | 639 | - |
| 13 | g9948.t1 | SUPERFAMILY | SSF53335 | S-adenosyl-L-methionine-dependent methyltransferases | 32 | 180 | 5.68E-16 |
| 7 | g9948.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 21 | 43 | - |
| 11 | g9948.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 226 | 248 | - |
| 6 | g9948.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 274 | 296 | - |
| 4 | g9948.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 311 | 333 | - |
| 8 | g9948.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 469 | 491 | - |
| 9 | g9948.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 501 | 523 | - |
| 5 | g9948.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 530 | 552 | - |
| 10 | g9948.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 567 | 586 | - |
| 12 | g9948.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 593 | 615 | - |
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.
