General information for g6898.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Sodium-dependent dopamine transporter.
Parent gene
- The parent gene g6898 is located on chr_2: 19750275..19755721 (+ 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 | g6898 | g6898.t1 | TSS | g6898.t1 | 19750057 | 19750057 |
| chr_2 | g6898 | g6898.t1 | isoform | g6898.t1 | 19750275 | 19755721 |
| chr_2 | g6898 | g6898.t1 | exon | g6898.t1.exon1 | 19750275 | 19750305 |
| chr_2 | g6898 | g6898.t1 | cds | g6898.t1.CDS1 | 19750275 | 19750305 |
| chr_2 | g6898 | g6898.t1 | exon | g6898.t1.exon2 | 19752087 | 19752305 |
| chr_2 | g6898 | g6898.t1 | cds | g6898.t1.CDS2 | 19752087 | 19752305 |
| chr_2 | g6898 | g6898.t1 | exon | g6898.t1.exon3 | 19753765 | 19754054 |
| chr_2 | g6898 | g6898.t1 | cds | g6898.t1.CDS3 | 19753765 | 19754054 |
| chr_2 | g6898 | g6898.t1 | exon | g6898.t1.exon4 | 19754131 | 19754533 |
| chr_2 | g6898 | g6898.t1 | cds | g6898.t1.CDS4 | 19754131 | 19754533 |
| chr_2 | g6898 | g6898.t1 | exon | g6898.t1.exon5 | 19754590 | 19754652 |
| chr_2 | g6898 | g6898.t1 | cds | g6898.t1.CDS5 | 19754590 | 19754652 |
| chr_2 | g6898 | g6898.t1 | exon | g6898.t1.exon6 | 19754716 | 19754901 |
| chr_2 | g6898 | g6898.t1 | cds | g6898.t1.CDS6 | 19754716 | 19754901 |
| chr_2 | g6898 | g6898.t1 | exon | g6898.t1.exon7 | 19754964 | 19755721 |
| chr_2 | g6898 | g6898.t1 | cds | g6898.t1.CDS7 | 19754964 | 19755721 |
| chr_2 | g6898 | g6898.t1 | TTS | g6898.t1 | NA | NA |
Sequences
>g6898.t1 Gene=g6898 Length=1950
ATGCCAAAACTAACATCTCCTAATGAGAGAGAGAATCAAGGTGGAGCAAGCTTGCTGGAA
GCTGGAATTCAAATGTCACTTCTTGGGCGGCTTAAAAAATCTAACGCACCACCGCGAACA
GCAATACCTAGTACAGATGAACGTGAAACATGGTCTGGAAAAGTGGATTTTTTACTATCA
GTTATTGGCTTTGCCGTAGATTTGGCCAACGTCTGGAGGTTTCCATATCTTTGCTATCGA
AATGGAGGAGGAGCTTTTTTGATACCTTACTGTATAATGTTATTGGTTGGCGGCATTCCA
CTTTTCTATATGGAATTAGCATTGGGTCAGCACGAGAGAAAAGGAGCGATTACAACTTGG
GGAAATTTAGTGCCACTCTTCAAGGGTTTAGGATGGTCTGTTGTGTTGATTGCTTTTTAC
GTTGATTTCTTTTACAATGTTATCATCGCTTGGTCTTTACGATTTTTCTTCGCCTCTATT
ACTGACTCATTACCGTGGCAAACTTGTGGTAATCATTGGAACACAAATTCATGTAGACCC
TTTGAAGTAAATTATTCACGCTCAACGGATGCTCCATCATTGCTACAAACTACTCTCGCT
CCGTTCTTAAGTAACTCATCGACAGTAGCAATTATCAACCAAACAACCGCTTTAAATACT
ACATCTGCACCAAATATCACTCATACAGCATTTTCATCAGCATCGTCAGAATACTTTAAT
CGTTTTATACTCGAAATTCATAAGTCCGATGGCATACACGATTTAGGAATCATCAAATGG
GAAATGGCTGCATGTCTTCTCATCGTATATTTGATTTGTTACTTTTCGTTATGGAAGGGT
ATTAGTACGAGTGGAAAAGTAGTGTGGTTCACTGCATTATTTCCATATGTAGTGCTTTTA
GCTTTGTTAATTCGAGGTATTACATTACCTGGAAGTGCTGAAGGGATAAGTTATTATCTT
CGTCCTGATTTTGATGTAATTTATAAAGCAGAAGTTTGGGTTGATGCTGCAACGCAAGTC
TTTTTTTCACTTGGCCCTGGTTTTGGTGTTCTATTAGCATATGCATCGTATAACAAATAT
CATAATAATGTGTATAAAGACGCATTGTTAACGAGCTTCATTAATTCTGCCACCTCATTT
ATTTCTGGTTTTGTGATTTTCTCGGTTCTTGGTTATATGGCATATGCCTCAGGTCAAAAA
ATCTCAGATGTTGCGACCGAAGGTCCGGGTCTAGTTTTTGATGTTTATCCAGCTGCTATA
GCAACCATGCCAGGTTCATCATTTTGGGCTCTTATTTTCTTCATGATGTTGCTTACACTT
GGTCTTGATTCTTCATTTGGTGGAAGTGAAGCAATCATTACAGCCCTAAGTGATGAATTT
CCAAAAATAAAACGAAATCGCGAAGTTTTTATAGCGTGTCTTTTCACACTTTATTTTGTT
GTTGGATTGGCCTCATGTACCCAAGGTGGATTTTATTTCTTTCAATTGTTAGATAAATAT
GCTGCTGGTTATTCAATTTTAATTGCTGTTCTATTTGAATCGGTTTGTGTAAGTTGGATT
TATGGAACAAAACGATTTTGTGCAGATATCAAGGATATGATAGGTTTCTATCCAGGAAGA
TATTGGATCAATTGCTGGAAATTTGCAGCACCTCTGTTCCTTATATTCATTATTGTTTTT
GGTTTAATCAATTATGAGCCATTGAGTCATGGTGATTATATTTATCCTGTGTGGGCAAAT
ACTTTAGGATGGTGTATTGCTATTAGTTCAATGGCAATGATTCCTGCAGTCGCTATCTAT
AAAATTTTAATTACGAAAGGCACTTTTGCAGAGCGATTAAGAATTTTGACAACACCCGTC
AAAGATCAAGTCCTTCAAAATGTCAATGGAGTTACTACAGAACAGGCACAAGTGAGATTA
ACCACAAATACCGAAGGAGAAGACGTTTGA
>g6898.t1 Gene=g6898 Length=649
MPKLTSPNERENQGGASLLEAGIQMSLLGRLKKSNAPPRTAIPSTDERETWSGKVDFLLS
VIGFAVDLANVWRFPYLCYRNGGGAFLIPYCIMLLVGGIPLFYMELALGQHERKGAITTW
GNLVPLFKGLGWSVVLIAFYVDFFYNVIIAWSLRFFFASITDSLPWQTCGNHWNTNSCRP
FEVNYSRSTDAPSLLQTTLAPFLSNSSTVAIINQTTALNTTSAPNITHTAFSSASSEYFN
RFILEIHKSDGIHDLGIIKWEMAACLLIVYLICYFSLWKGISTSGKVVWFTALFPYVVLL
ALLIRGITLPGSAEGISYYLRPDFDVIYKAEVWVDAATQVFFSLGPGFGVLLAYASYNKY
HNNVYKDALLTSFINSATSFISGFVIFSVLGYMAYASGQKISDVATEGPGLVFDVYPAAI
ATMPGSSFWALIFFMMLLTLGLDSSFGGSEAIITALSDEFPKIKRNREVFIACLFTLYFV
VGLASCTQGGFYFFQLLDKYAAGYSILIAVLFESVCVSWIYGTKRFCADIKDMIGFYPGR
YWINCWKFAAPLFLIFIIVFGLINYEPLSHGDYIYPVWANTLGWCIAISSMAMIPAVAIY
KILITKGTFAERLRILTTPVKDQVLQNVNGVTTEQAQVRLTTNTEGEDV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g6898.t1 | PANTHER | PTHR11616:SF268 | TRANSPORTER | 44 | 623 | 1.3E-232 |
| 3 | g6898.t1 | PANTHER | PTHR11616 | SODIUM/CHLORIDE DEPENDENT TRANSPORTER | 44 | 623 | 1.3E-232 |
| 6 | g6898.t1 | PRINTS | PR00176 | Sodium/chloride neurotransmitter symporter signature | 56 | 77 | 2.7E-76 |
| 4 | g6898.t1 | PRINTS | PR00176 | Sodium/chloride neurotransmitter symporter signature | 85 | 104 | 2.7E-76 |
| 9 | g6898.t1 | PRINTS | PR00176 | Sodium/chloride neurotransmitter symporter signature | 129 | 155 | 2.7E-76 |
| 5 | g6898.t1 | PRINTS | PR00176 | Sodium/chloride neurotransmitter symporter signature | 287 | 304 | 2.7E-76 |
| 8 | g6898.t1 | PRINTS | PR00176 | Sodium/chloride neurotransmitter symporter signature | 369 | 389 | 2.7E-76 |
| 10 | g6898.t1 | PRINTS | PR00176 | Sodium/chloride neurotransmitter symporter signature | 423 | 442 | 2.7E-76 |
| 11 | g6898.t1 | PRINTS | PR00176 | Sodium/chloride neurotransmitter symporter signature | 503 | 523 | 2.7E-76 |
| 7 | g6898.t1 | PRINTS | PR00176 | Sodium/chloride neurotransmitter symporter signature | 543 | 563 | 2.7E-76 |
| 1 | g6898.t1 | Pfam | PF00209 | Sodium:neurotransmitter symporter family | 48 | 603 | 1.6E-219 |
| 16 | g6898.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 56 | - |
| 37 | g6898.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 57 | 75 | - |
| 23 | g6898.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 76 | 86 | - |
| 31 | g6898.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 87 | 108 | - |
| 14 | g6898.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 109 | 128 | - |
| 34 | g6898.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 129 | 153 | - |
| 22 | g6898.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 154 | 256 | - |
| 29 | g6898.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 257 | 275 | - |
| 19 | g6898.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 276 | 286 | - |
| 33 | g6898.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 287 | 307 | - |
| 21 | g6898.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 308 | 335 | - |
| 30 | g6898.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 336 | 357 | - |
| 15 | g6898.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 358 | 368 | - |
| 26 | g6898.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 369 | 395 | - |
| 25 | g6898.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 396 | 414 | - |
| 36 | g6898.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 415 | 438 | - |
| 13 | g6898.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 439 | 468 | - |
| 32 | g6898.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 469 | 494 | - |
| 20 | g6898.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 495 | 499 | - |
| 28 | g6898.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 500 | 521 | - |
| 17 | g6898.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 522 | 540 | - |
| 27 | g6898.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 541 | 565 | - |
| 24 | g6898.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 566 | 576 | - |
| 35 | g6898.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 577 | 604 | - |
| 18 | g6898.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 605 | 649 | - |
| 51 | g6898.t1 | ProSitePatterns | PS00610 | Sodium:neurotransmitter symporter family signature 1. | 72 | 86 | - |
| 50 | g6898.t1 | ProSitePatterns | PS00754 | Sodium:neurotransmitter symporter family signature 2. | 155 | 175 | - |
| 52 | g6898.t1 | ProSiteProfiles | PS50267 | Sodium:neurotransmitter symporter family profile. | 47 | 607 | 107.611 |
| 12 | g6898.t1 | SUPERFAMILY | SSF161070 | SNF-like | 48 | 602 | 3.66E-176 |
| 41 | g6898.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 57 | 76 | - |
| 46 | g6898.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 86 | 108 | - |
| 44 | g6898.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 129 | 151 | - |
| 47 | g6898.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 256 | 278 | - |
| 40 | g6898.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 287 | 309 | - |
| 49 | g6898.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 333 | 355 | - |
| 48 | g6898.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 368 | 390 | - |
| 39 | g6898.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 420 | 442 | - |
| 45 | g6898.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 469 | 491 | - |
| 42 | g6898.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 501 | 520 | - |
| 38 | g6898.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 541 | 563 | - |
| 43 | g6898.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 578 | 600 | - |
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:0016021 | integral component of membrane | CC |
KEGG
Orthology
- This transcript has been annotated with K05036 (solute carrier family 6 (neurotransmitter transporter, dopamine) member 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. There were no conditions that were differentially expressed