General information for g10002.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Galactokinase.
Parent gene
- The parent gene g10002 is located on chr_1: 6543710..6555948 (+ 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 | g10002 | g10002.t1 | isoform | g10002.t1 | 6543710 | 6555948 |
| chr_1 | g10002 | g10002.t1 | exon | g10002.t1.exon1 | 6543710 | 6543818 |
| chr_1 | g10002 | g10002.t1 | cds | g10002.t1.CDS1 | 6543710 | 6543818 |
| chr_1 | g10002 | g10002.t1 | exon | g10002.t1.exon2 | 6543900 | 6543958 |
| chr_1 | g10002 | g10002.t1 | cds | g10002.t1.CDS2 | 6543900 | 6543958 |
| chr_1 | g10002 | g10002.t1 | exon | g10002.t1.exon3 | 6544073 | 6544212 |
| chr_1 | g10002 | g10002.t1 | cds | g10002.t1.CDS3 | 6544073 | 6544212 |
| chr_1 | g10002 | g10002.t1 | exon | g10002.t1.exon4 | 6548881 | 6549051 |
| chr_1 | g10002 | g10002.t1 | cds | g10002.t1.CDS4 | 6548881 | 6549051 |
| chr_1 | g10002 | g10002.t1 | exon | g10002.t1.exon5 | 6549119 | 6549157 |
| chr_1 | g10002 | g10002.t1 | cds | g10002.t1.CDS5 | 6549119 | 6549157 |
| chr_1 | g10002 | g10002.t1 | exon | g10002.t1.exon6 | 6549219 | 6549305 |
| chr_1 | g10002 | g10002.t1 | cds | g10002.t1.CDS6 | 6549219 | 6549305 |
| chr_1 | g10002 | g10002.t1 | exon | g10002.t1.exon7 | 6549627 | 6549808 |
| chr_1 | g10002 | g10002.t1 | cds | g10002.t1.CDS7 | 6549627 | 6549808 |
| chr_1 | g10002 | g10002.t1 | exon | g10002.t1.exon8 | 6552301 | 6552416 |
| chr_1 | g10002 | g10002.t1 | cds | g10002.t1.CDS8 | 6552301 | 6552416 |
| chr_1 | g10002 | g10002.t1 | exon | g10002.t1.exon9 | 6552702 | 6552813 |
| chr_1 | g10002 | g10002.t1 | cds | g10002.t1.CDS9 | 6552702 | 6552813 |
| chr_1 | g10002 | g10002.t1 | exon | g10002.t1.exon10 | 6552892 | 6552918 |
| chr_1 | g10002 | g10002.t1 | cds | g10002.t1.CDS10 | 6552892 | 6552918 |
| chr_1 | g10002 | g10002.t1 | exon | g10002.t1.exon11 | 6552992 | 6553115 |
| chr_1 | g10002 | g10002.t1 | cds | g10002.t1.CDS11 | 6552992 | 6553115 |
| chr_1 | g10002 | g10002.t1 | exon | g10002.t1.exon12 | 6555264 | 6555387 |
| chr_1 | g10002 | g10002.t1 | cds | g10002.t1.CDS12 | 6555264 | 6555387 |
| chr_1 | g10002 | g10002.t1 | exon | g10002.t1.exon13 | 6555442 | 6555948 |
| chr_1 | g10002 | g10002.t1 | cds | g10002.t1.CDS13 | 6555442 | 6555948 |
| chr_1 | g10002 | g10002.t1 | TSS | g10002.t1 | NA | NA |
| chr_1 | g10002 | g10002.t1 | TTS | g10002.t1 | NA | NA |
Sequences
>g10002.t1 Gene=g10002 Length=1797
ATGGCAACAGCAGCAAGAATTCAACCATTTGATGAGCTCCTAAGCGACGCTATAAAGAAT
TTCGAAGAGACGTTCGGAAAAAAACCCGAAGTGGCAGCATGCGCCCCAGGCCGTGTTAAT
TTGATTGGAGAGCATATTGATTATTGTGATGGTTTTGTGTTACCAATGGCACTTCCCATG
GTTACAATTATCGTCGGTCGTAGAAACGGTACGAAAGATGAATGTAATGTTAAGACACTT
TGCCCTGGGGCTGATTTTCCACGCAAAATACAATTCACAACTGATTATTTGGTTCGTGGA
CTACCGCGATGGGCAAACTATGTAAAAGGTGTAATTTATAATTATGGCTTTCCTGTAACA
GGATTTGATGCGGTTATAATTACGAATGTGCCATTAGGTGGTGGTCTATCATCATCAGCT
GCACTCGAAGTTGCCACAATGAAATTCCTCGAACTCATTACCAACAAAAAGCATGAAAAA
GAAAGTGATAAAGCACTGATTTGTCAAAAAGCTGAACATACTTTTGCTGAATGTCCCTGT
GGAATTATGGATCAGTTTATTTCAGTGATGGGAAAGAAGAACCATGCTCTACTAATTGAT
TGCCAATCATTAACAGCCGAGCACATTCCATTTAATGCTAGCGACCTCGTTGTGCTGATC
TGTAATTCAAATGTGAAACATAACTTATCCGAAAGTGAATATCCAACTAGACGTAATCAA
TGTACTGAGGCATTAAAATTGATGGGTTTGAGCAGCTATCGAGAGGTTAATTCTTTACAT
TTGGAAGAATTAGAGAAAAGCAATGCGGATGAAGTTCTAAAAAAGCGAGCAAGGCATGTA
ATTGGAGAAATTGAAAGAGTTAAAAAAGCAACTGAAGCACTTAAAAAAGGAAATTTTGAA
GACTTCGGTCGGCTGATGGTAGAATCGCATAAATCATTATCAAGCGATTTTGAAGTGTCA
TGTGATGAATTGGATAAATTGGTGGATATAGCAATGAAGTGTAAGGGCGTATTGGGTTCA
CGAATGACAGGAGGTGGTTTTGGTGGCTGCACGGTAAGCCTAGTGAAAGCCGACGAAATT
GATAATGTGATTAAGCAGATTGATGCTGGCTATAATGGAGCAACATTCTATGTCTGCAAA
GCATCGGATGGAGCTCGCGATATTGAGAGTGAATGGACTGCTGATATGCCTTTGAAATTT
AAAAGTTTCTATGACATTAGCAAAACACCAGCATATCAAACAACTTATATTGCTACAGTG
ATTGATATTTACATTATTTCATTTATTAATTTTGCAGCTGATTCAATTTTTCTAGTTTGT
TGCTTAAATGTTGGTACTTATTTTGATATGTTGAAACAAAAAGTTTATGAAACTGAAAAG
AAAGAGTTAATTAAGGAACATCAAGAAACTTTGGAAATTGCAAAAGAACTCAATGATCTC
TTCAGGCCGATAATTTTTTTTGAATTTCTCATAATTCCGATTGTGCTTTGTGGCATTGGA
GTAACATTTGTAATGGCGAGAAATTTTGTTGAAAAATCTTTAGTCATTGGATACGGAAAT
ACAATGCTGATTCAATTGTATTTTCATTGTTACAGTGGAGAATATTTAATGAAAAGAACT
GAAAGTGTTTGTGATGATTTATACAAATTAGATCGTGATAATTGCTTAGTGATCAAACGA
ACTCAGAAAAAAATTGTAATTCAAGCTCCTTTCATTCGTGCAACATTACAACAATTTGGA
TCAGTTTTAAATATGATTTGGAGTTTGATTACAGTGTTGAAATCATCAATAGAGTGA
>g10002.t1 Gene=g10002 Length=598
MATAARIQPFDELLSDAIKNFEETFGKKPEVAACAPGRVNLIGEHIDYCDGFVLPMALPM
VTIIVGRRNGTKDECNVKTLCPGADFPRKIQFTTDYLVRGLPRWANYVKGVIYNYGFPVT
GFDAVIITNVPLGGGLSSSAALEVATMKFLELITNKKHEKESDKALICQKAEHTFAECPC
GIMDQFISVMGKKNHALLIDCQSLTAEHIPFNASDLVVLICNSNVKHNLSESEYPTRRNQ
CTEALKLMGLSSYREVNSLHLEELEKSNADEVLKKRARHVIGEIERVKKATEALKKGNFE
DFGRLMVESHKSLSSDFEVSCDELDKLVDIAMKCKGVLGSRMTGGGFGGCTVSLVKADEI
DNVIKQIDAGYNGATFYVCKASDGARDIESEWTADMPLKFKSFYDISKTPAYQTTYIATV
IDIYIISFINFAADSIFLVCCLNVGTYFDMLKQKVYETEKKELIKEHQETLEIAKELNDL
FRPIIFFEFLIIPIVLCGIGVTFVMARNFVEKSLVIGYGNTMLIQLYFHCYSGEYLMKRT
ESVCDDLYKLDRDNCLVIKRTQKKIVIQAPFIRATLQQFGSVLNMIWSLITVLKSSIE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 19 | g10002.t1 | Coils | Coil | Coil | 460 | 480 | - |
| 17 | g10002.t1 | Gene3D | G3DSA:3.30.230.10 | - | 21 | 210 | 1.5E-129 |
| 18 | g10002.t1 | Gene3D | G3DSA:3.30.70.890 | - | 211 | 358 | 1.5E-129 |
| 5 | g10002.t1 | PANTHER | PTHR10457 | MEVALONATE KINASE/GALACTOKINASE | 14 | 386 | 2.5E-130 |
| 6 | g10002.t1 | PANTHER | PTHR10457:SF6 | GALACTOKINASE | 14 | 386 | 2.5E-130 |
| 10 | g10002.t1 | PRINTS | PR00959 | Mevalonate kinase family signature | 35 | 59 | 3.0E-38 |
| 14 | g10002.t1 | PRINTS | PR00473 | Galactokinase signature | 37 | 55 | 7.4E-24 |
| 11 | g10002.t1 | PRINTS | PR00473 | Galactokinase signature | 104 | 115 | 7.4E-24 |
| 13 | g10002.t1 | PRINTS | PR00473 | Galactokinase signature | 121 | 139 | 7.4E-24 |
| 7 | g10002.t1 | PRINTS | PR00959 | Mevalonate kinase family signature | 128 | 150 | 3.0E-38 |
| 9 | g10002.t1 | PRINTS | PR00959 | Mevalonate kinase family signature | 172 | 191 | 3.0E-38 |
| 12 | g10002.t1 | PRINTS | PR00473 | Galactokinase signature | 275 | 289 | 7.4E-24 |
| 8 | g10002.t1 | PRINTS | PR00959 | Mevalonate kinase family signature | 339 | 356 | 3.0E-38 |
| 1 | g10002.t1 | Pfam | PF10509 | Galactokinase galactose-binding signature | 20 | 67 | 1.1E-22 |
| 4 | g10002.t1 | Pfam | PF00288 | GHMP kinases N terminal domain | 124 | 191 | 2.6E-11 |
| 2 | g10002.t1 | Pfam | PF08544 | GHMP kinases C terminal | 292 | 371 | 7.9E-13 |
| 3 | g10002.t1 | Pfam | PF02949 | 7tm Odorant receptor | 390 | 585 | 1.1E-21 |
| 22 | g10002.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 422 | - |
| 24 | g10002.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 423 | 444 | - |
| 20 | g10002.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 445 | 483 | - |
| 23 | g10002.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 484 | 506 | - |
| 21 | g10002.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 507 | 598 | - |
| 27 | g10002.t1 | ProSitePatterns | PS00106 | Galactokinase signature. | 37 | 48 | - |
| 28 | g10002.t1 | ProSitePatterns | PS00627 | GHMP kinases putative ATP-binding domain. | 130 | 141 | - |
| 15 | g10002.t1 | SUPERFAMILY | SSF54211 | Ribosomal protein S5 domain 2-like | 9 | 212 | 4.4E-55 |
| 16 | g10002.t1 | SUPERFAMILY | SSF55060 | GHMP Kinase, C-terminal domain | 215 | 386 | 1.01E-49 |
| 29 | g10002.t1 | TIGRFAM | TIGR00131 | gal_kin: galactokinase | 17 | 387 | 9.0E-106 |
| 26 | g10002.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 423 | 445 | - |
| 25 | g10002.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 484 | 506 | - |
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:0007608 | sensory perception of smell | BP |
| GO:0005524 | ATP binding | MF |
| GO:0005549 | odorant binding | MF |
| GO:0004984 | olfactory receptor activity | MF |
| GO:0046835 | carbohydrate phosphorylation | BP |
| GO:0006012 | galactose metabolic process | BP |
| GO:0004335 | galactokinase activity | MF |
KEGG
Orthology
- This transcript has been annotated with K00849 (galactokinase)
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. There were no conditions that were differentially expressed