General information for g9965.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Sialin.
Parent gene
- The parent gene g9965 is located on chr_1: 6284481..6285242 (+ 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 | g9965 | g9965.t1 | isoform | g9965.t1 | 6281056 | 6285242 |
| chr_1 | g9965 | g9965.t1 | exon | g9965.t1.exon1 | 6281056 | 6281081 |
| chr_1 | g9965 | g9965.t1 | cds | g9965.t1.CDS1 | 6281056 | 6281081 |
| chr_1 | g9965 | g9965.t1 | exon | g9965.t1.exon2 | 6283422 | 6283523 |
| chr_1 | g9965 | g9965.t1 | cds | g9965.t1.CDS2 | 6283422 | 6283523 |
| chr_1 | g9965 | g9965.t1 | exon | g9965.t1.exon3 | 6283580 | 6283763 |
| chr_1 | g9965 | g9965.t1 | cds | g9965.t1.CDS3 | 6283580 | 6283763 |
| chr_1 | g9965 | g9965.t1 | exon | g9965.t1.exon4 | 6283822 | 6283935 |
| chr_1 | g9965 | g9965.t1 | cds | g9965.t1.CDS4 | 6283822 | 6283935 |
| chr_1 | g9965 | g9965.t1 | exon | g9965.t1.exon5 | 6283992 | 6284043 |
| chr_1 | g9965 | g9965.t1 | cds | g9965.t1.CDS5 | 6283992 | 6284043 |
| chr_1 | g9965 | g9965.t1 | exon | g9965.t1.exon6 | 6284098 | 6284349 |
| chr_1 | g9965 | g9965.t1 | cds | g9965.t1.CDS6 | 6284098 | 6284349 |
| chr_1 | g9965 | g9965.t1 | exon | g9965.t1.exon7 | 6284481 | 6284607 |
| chr_1 | g9965 | g9965.t1 | cds | g9965.t1.CDS7 | 6284481 | 6284607 |
| chr_1 | g9965 | g9965.t1 | exon | g9965.t1.exon8 | 6284659 | 6284995 |
| chr_1 | g9965 | g9965.t1 | cds | g9965.t1.CDS8 | 6284659 | 6284995 |
| chr_1 | g9965 | g9965.t1 | exon | g9965.t1.exon9 | 6285054 | 6285090 |
| chr_1 | g9965 | g9965.t1 | cds | g9965.t1.CDS9 | 6285054 | 6285090 |
| chr_1 | g9965 | g9965.t1 | exon | g9965.t1.exon10 | 6285142 | 6285242 |
| chr_1 | g9965 | g9965.t1 | cds | g9965.t1.CDS10 | 6285142 | 6285242 |
| chr_1 | g9965 | g9965.t1 | TSS | g9965.t1 | NA | NA |
| chr_1 | g9965 | g9965.t1 | TTS | g9965.t1 | NA | NA |
Sequences
>g9965.t1 Gene=g9965 Length=1332
ATGGATAGAAATAGCGCTAATGAAACATTAGAAGATTCAACATTAATTTGGAAAAGGCGA
AGATATTTTGTAGTATTTATGGCATTTCTTGGGTACTTCAATATTTTTACAATGAGATCA
AATTTAAGTGTTGCTATTGTATCAATGACAAGAAATCACTCTATTATAAATAATGACGGA
GAAATCACTTATGAGCAAAATTTTTCATGGGACTCTAAAGAAAAAGGCTACGTTTTATCA
TCATTTTATTATGGCTATATTTGTACTCAAATTCTTGGTGGTGCTTTGTCTACAGTTATC
GGCGGAAATATTCTTTTTGGCACAGGAGTTCTTATGACATCTATTCTCACACTTGTTGCA
CCAATTGCAGCGAATATACATTTATATGTTTTCATTGCATCAAGAGCATTCATAGGAATT
TTTGAAGGTATTACAATTCCAGCATTATATCAAATGTGGTTTAAATGGGTGCCACCGCGT
GAAAGAGCAAGATTATTTTCAATAGCGCATTCAGGTGGTTACATTGGATTAGTTGTGAGT
ACTTCACTATCTGGAGTTATTATTAGTTCAATTGGATGGGAATTTTCATTTTATATTTTT
GGAATATTTGGTTTAATTTGGTCAATTCTTTGGTTAATTTTTATTGGACAATCGCCAGCA
AAAGATCATTTTATAAGTTTAAATGAAAGAAATTTTATTGAGGAATCGTTAAGAAGAGAC
TTGAAATGCATTGCGAATTTTGCTGCAGGTTATGGAATCTATACATTACAAACACAATTA
CCTCAATTTGTCTACGATACTCTTAATTATAATATCACAGAATCTGGGTTTATCTCTGCA
CTTCCATATCTTTTCCTAGCATTTATGGTGTTATTAGCTGGTACATTAACTGACTGGGTA
ATTTTTAAAGGTCATCTAACGAAACTACAAACTCGTAAAATCTTTGCCTGCTTTTCACTT
CTCATCAATATGATTTGTGTTTTTCTTGCTGTCTATTTTGTTCATCCTATTGCATCAATA
GCATTTATCACCATAGGACTATCTATTACAGCTTTTGCTATTGTTAATGCTGATCCAAAT
TTATTTGACCTTGCACCACAATTTTCTGGAGTATTAGTAGCAATTGCAAATTCATCAGCA
ACAATTTCCGGTATGATTTCACCTGTTGTTTCTGGATTTATTGTTACAGATGGAACTGAA
CAACAGTGGAAAATTGTCTTTTATATAAGTGCTGCTTTATATTTCGTCGGAGCCTTAGTT
TTTGGAATCTGGAGTGAAGCAGAAATACAACCTTGGGCAAAAGAAAAAGAAAATGAAAAT
AGAGAACAATAA
>g9965.t1 Gene=g9965 Length=443
MDRNSANETLEDSTLIWKRRRYFVVFMAFLGYFNIFTMRSNLSVAIVSMTRNHSIINNDG
EITYEQNFSWDSKEKGYVLSSFYYGYICTQILGGALSTVIGGNILFGTGVLMTSILTLVA
PIAANIHLYVFIASRAFIGIFEGITIPALYQMWFKWVPPRERARLFSIAHSGGYIGLVVS
TSLSGVIISSIGWEFSFYIFGIFGLIWSILWLIFIGQSPAKDHFISLNERNFIEESLRRD
LKCIANFAAGYGIYTLQTQLPQFVYDTLNYNITESGFISALPYLFLAFMVLLAGTLTDWV
IFKGHLTKLQTRKIFACFSLLINMICVFLAVYFVHPIASIAFITIGLSITAFAIVNADPN
LFDLAPQFSGVLVAIANSSATISGMISPVVSGFIVTDGTEQQWKIVFYISAALYFVGALV
FGIWSEAEIQPWAKEKENENREQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 32 | g9965.t1 | CDD | cd17318 | MFS_SLC17 | 26 | 424 | 5.44395E-125 |
| 6 | g9965.t1 | Gene3D | G3DSA:1.20.1250.20 | MFS general substrate transporter like domains | 15 | 228 | 1.4E-37 |
| 5 | g9965.t1 | Gene3D | G3DSA:1.20.1250.20 | MFS general substrate transporter like domains | 241 | 429 | 6.7E-24 |
| 2 | g9965.t1 | PANTHER | PTHR11662 | SOLUTE CARRIER FAMILY 17 | 17 | 440 | 3.4E-124 |
| 3 | g9965.t1 | PANTHER | PTHR11662:SF437 | GH23975P | 17 | 440 | 3.4E-124 |
| 1 | g9965.t1 | Pfam | PF07690 | Major Facilitator Superfamily | 29 | 366 | 8.3E-42 |
| 8 | g9965.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 20 | - |
| 31 | g9965.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 21 | 39 | - |
| 16 | g9965.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 40 | 76 | - |
| 20 | g9965.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 77 | 97 | - |
| 10 | g9965.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 98 | 103 | - |
| 23 | g9965.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 104 | 123 | - |
| 15 | g9965.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 124 | 128 | - |
| 28 | g9965.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 129 | 150 | - |
| 7 | g9965.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 151 | 170 | - |
| 22 | g9965.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 171 | 191 | - |
| 19 | g9965.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 192 | 196 | - |
| 27 | g9965.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 197 | 220 | - |
| 13 | g9965.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 221 | 240 | - |
| 26 | g9965.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 241 | 260 | - |
| 14 | g9965.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 261 | 279 | - |
| 30 | g9965.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 280 | 302 | - |
| 12 | g9965.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 303 | 313 | - |
| 29 | g9965.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 314 | 334 | - |
| 17 | g9965.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 335 | 339 | - |
| 21 | g9965.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 340 | 357 | - |
| 9 | g9965.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 358 | 368 | - |
| 25 | g9965.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 369 | 393 | - |
| 18 | g9965.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 394 | 404 | - |
| 24 | g9965.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 405 | 424 | - |
| 11 | g9965.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 425 | 443 | - |
| 45 | g9965.t1 | ProSiteProfiles | PS50850 | Major facilitator superfamily (MFS) profile. | 20 | 429 | 22.862 |
| 4 | g9965.t1 | SUPERFAMILY | SSF103473 | MFS general substrate transporter | 15 | 439 | 6.67E-64 |
| 39 | g9965.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 21 | 38 | - |
| 41 | g9965.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 77 | 99 | - |
| 36 | g9965.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 104 | 126 | - |
| 38 | g9965.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 131 | 153 | - |
| 44 | g9965.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 166 | 188 | - |
| 33 | g9965.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 193 | 215 | - |
| 35 | g9965.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 243 | 265 | - |
| 43 | g9965.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 280 | 302 | - |
| 40 | g9965.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 314 | 333 | - |
| 34 | g9965.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 337 | 356 | - |
| 42 | g9965.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 368 | 390 | - |
| 37 | g9965.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 405 | 424 | - |
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. There were no conditions that were differentially expressed