General information for g6927.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Sialin.
Parent gene
- The parent gene g6927 is located on chr_2: 20019163..20021439 (- 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 | g6927 | g6927.t3 | TTS | g6927.t3 | 20019090 | 20019090 |
| chr_2 | g6927 | g6927.t3 | isoform | g6927.t3 | 20019163 | 20021439 |
| chr_2 | g6927 | g6927.t3 | exon | g6927.t3.exon1 | 20019163 | 20019332 |
| chr_2 | g6927 | g6927.t3 | cds | g6927.t3.CDS1 | 20019322 | 20019332 |
| chr_2 | g6927 | g6927.t3 | exon | g6927.t3.exon2 | 20019450 | 20019802 |
| chr_2 | g6927 | g6927.t3 | cds | g6927.t3.CDS2 | 20019450 | 20019802 |
| chr_2 | g6927 | g6927.t3 | exon | g6927.t3.exon3 | 20019862 | 20019988 |
| chr_2 | g6927 | g6927.t3 | cds | g6927.t3.CDS3 | 20019862 | 20019988 |
| chr_2 | g6927 | g6927.t3 | exon | g6927.t3.exon4 | 20020047 | 20020154 |
| chr_2 | g6927 | g6927.t3 | cds | g6927.t3.CDS4 | 20020047 | 20020154 |
| chr_2 | g6927 | g6927.t3 | exon | g6927.t3.exon5 | 20020228 | 20020431 |
| chr_2 | g6927 | g6927.t3 | cds | g6927.t3.CDS5 | 20020228 | 20020431 |
| chr_2 | g6927 | g6927.t3 | exon | g6927.t3.exon6 | 20020488 | 20020653 |
| chr_2 | g6927 | g6927.t3 | cds | g6927.t3.CDS6 | 20020488 | 20020653 |
| chr_2 | g6927 | g6927.t3 | exon | g6927.t3.exon7 | 20020711 | 20020894 |
| chr_2 | g6927 | g6927.t3 | cds | g6927.t3.CDS7 | 20020711 | 20020894 |
| chr_2 | g6927 | g6927.t3 | exon | g6927.t3.exon8 | 20020946 | 20021439 |
| chr_2 | g6927 | g6927.t3 | cds | g6927.t3.CDS8 | 20020946 | 20020995 |
| chr_2 | g6927 | g6927.t3 | TSS | g6927.t3 | NA | NA |
Sequences
>g6927.t3 Gene=g6927 Length=1806
ATGGAAAGAAATGTTGAAAAAAGTTGGTAAGTTTGTGATATGAAGTTTTAAAAATACTTT
TTAATAAAAAAAACGTGCAAGTAACGAATGAAATGTTTTAAAATTTTTGATTAAATAATT
TACATAATCATTTACGATTGTACGCTTGCATTTAGATTCATCTAAGTATAAAATTTTCAG
TGTATTCAACCCTTTTGTATCTTAGAAGTGAATATTTTTATTATTTTATGACACTAATTA
AGACAATACGTCGTTAATATATCAGTAGACTTGAGATTATTATTTATCTCATGTTTTTTT
GTACGACTTCAATGAAAGAAAAATTTTATTTATGAGTTCTTGTTTGATGTCACATTACCT
ACCTCAATATGTTCTGATTTTAGGAATGATGAATTATTTGATCCAACACCGATCTGGAAA
CGAAGAAGATACTTTGTAGTTTTTATGGCATTTCTTGGACTTTTTAATGTTTATGCACTA
CGTTCAAATTTAAATGTCGCAATAGTGTCTATGACAGATAATCGTACAATTGAACATCCA
GATAATACAACAACATATGAACAGTATTTTAATTGGAATTCAAAAGAAAAAGGTTATGCA
CTTTCATCATTTTATTATGGTTATCTGTGTACGCAAATTATTGGAGGTGTTATTGCACAA
AAAACCGGTGGAAGCATCCTATTTGGTTGTGGTATTGGAGTGACTGCAATAATGACTCTG
CTAACACCTTTAGCTGCAAATCTGAGTTTATATGCACTGATTGGTGTACGGGTTATTGAA
GGGCTCTTTGAAGGTGTAACATATTCTGCACTTTATGAAATGTGGTCTAAATGGGCACCA
CCATTTGAAAGGTCAAGAATGGTCGTAGCAGCATTCACTGGAAATTATATAGGGCTTGTC
ATTAGCATGCCAGTGAGCGGAATTTTGGCAGCATCAGTAGGATGGGAATGGATATTTTAC
GTATTTGGTATAATTGGATGTGTTTGGACAGTATTATGGTTGATATTTATAAGACGAAGT
CCAGCTAGGGATCCATTTATAACAGCGGGTGAAAGAATATACATAGAGCAATCATTAAAT
AGACAATCTATGGATAAAGAAGTTAAAATTCCATGGAAAGCTATTTTTAATTCGAGTGCT
GTTTGGGCAATTATTGCTGCACAATTTAGTGAAGGTTGGGGCTTCTTTACTTTGCAAACT
CAGCTCCCACAGTTCTTAAAAGATGCATTAAATTTTGATATTGCGAAATCTGGAATAATT
TCGGCATTGCCTTATCTTTGCATGGCTGTAATGTGTCAAATTGCTGGCTATCTTTCTGAC
TGGGTACGAATTAAAGGGTATTGGACAACAGGACAAACACGACGATATTTTAATTCAATG
GCGTTTTTAACACAAATGGCTTGCATGTTACTTGCAGCTTTCTTTCTGCATCCTGTTTCA
TCGGTTACATTTATTACGATTGGTGTGGCTATGGCATCATTTGCTTATGCCAGCTTTTCT
GTAAATTATCTAGATATTGCACCACAATTTGCAGGCGTTTTAATGGGGCTTTGCAACAGT
TTTGCAACAGTCGCAGGAATAATTTCACCTATTTTGACTGGATATATTGTAACTGATGCT
GTGAGTATAAAATTTTGTTTATTTTAAGCTGGAATTTATGTTTTTGGTTGTGTTATTTAT
TGGATTTGGGCACAAGGAGAAATTCAACCATGGGCAGTTCAAGAATCGATTGAGTTTGAA
GATGCTTCTGAAATGCCAAAAATACAAAATGGAATTTCAAATCCTGCACTTGATGTAAAG
AAATAA
>g6927.t3 Gene=g6927 Length=400
MAFLGLFNVYALRSNLNVAIVSMTDNRTIEHPDNTTTYEQYFNWNSKEKGYALSSFYYGY
LCTQIIGGVIAQKTGGSILFGCGIGVTAIMTLLTPLAANLSLYALIGVRVIEGLFEGVTY
SALYEMWSKWAPPFERSRMVVAAFTGNYIGLVISMPVSGILAASVGWEWIFYVFGIIGCV
WTVLWLIFIRRSPARDPFITAGERIYIEQSLNRQSMDKEVKIPWKAIFNSSAVWAIIAAQ
FSEGWGFFTLQTQLPQFLKDALNFDIAKSGIISALPYLCMAVMCQIAGYLSDWVRIKGYW
TTGQTRRYFNSMAFLTQMACMLLAAFFLHPVSSVTFITIGVAMASFAYASFSVNYLDIAP
QFAGVLMGLCNSFATVAGIISPILTGYIVTDAVSIKFCLF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 28 | g6927.t3 | CDD | cd17318 | MFS_SLC17 | 1 | 395 | 6.38903E-140 |
| 5 | g6927.t3 | Gene3D | G3DSA:1.20.1250.20 | MFS general substrate transporter like domains | 1 | 198 | 1.1E-35 |
| 6 | g6927.t3 | Gene3D | G3DSA:1.20.1250.20 | MFS general substrate transporter like domains | 219 | 398 | 3.1E-29 |
| 2 | g6927.t3 | PANTHER | PTHR11662 | SOLUTE CARRIER FAMILY 17 | 1 | 392 | 1.1E-147 |
| 3 | g6927.t3 | PANTHER | PTHR11662:SF437 | GH23975P | 1 | 392 | 1.1E-147 |
| 1 | g6927.t3 | Pfam | PF07690 | Major Facilitator Superfamily | 3 | 382 | 3.4E-55 |
| 14 | g6927.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 50 | - |
| 19 | g6927.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 51 | 71 | - |
| 8 | g6927.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 72 | 77 | - |
| 24 | g6927.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 78 | 98 | - |
| 12 | g6927.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 99 | 103 | - |
| 26 | g6927.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 104 | 127 | - |
| 11 | g6927.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 128 | 138 | - |
| 21 | g6927.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 139 | 163 | - |
| 15 | g6927.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 164 | 168 | - |
| 27 | g6927.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 169 | 189 | - |
| 10 | g6927.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 190 | 225 | - |
| 23 | g6927.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 226 | 250 | - |
| 17 | g6927.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 251 | 269 | - |
| 20 | g6927.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 270 | 290 | - |
| 9 | g6927.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 291 | 310 | - |
| 25 | g6927.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 311 | 328 | - |
| 13 | g6927.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 329 | 333 | - |
| 18 | g6927.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 334 | 356 | - |
| 7 | g6927.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 357 | 367 | - |
| 22 | g6927.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 368 | 389 | - |
| 16 | g6927.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 390 | 400 | - |
| 39 | g6927.t3 | ProSiteProfiles | PS50850 | Major facilitator superfamily (MFS) profile. | 1 | 400 | 22.862 |
| 4 | g6927.t3 | SUPERFAMILY | SSF103473 | MFS general substrate transporter | 2 | 390 | 4.45E-65 |
| 33 | g6927.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 52 | 71 | - |
| 37 | g6927.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 78 | 100 | - |
| 34 | g6927.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 105 | 127 | - |
| 38 | g6927.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 140 | 162 | - |
| 30 | g6927.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 167 | 189 | - |
| 32 | g6927.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 227 | 249 | - |
| 31 | g6927.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 269 | 291 | - |
| 35 | g6927.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 308 | 330 | - |
| 29 | g6927.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 334 | 356 | - |
| 36 | g6927.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 368 | 390 | - |
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:0022857 | transmembrane transporter activity | MF |
KEGG
Orthology
This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).
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.
