General information for g16377.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Sodium-coupled monocarboxylate transporter 2.
Parent gene
- The parent gene g16377 is located on chr_4: 9278669..9287472 (+ 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_4 | g16377 | g16377.t1 | isoform | g16377.t1 | 9274030 | 9278971 |
| chr_4 | g16377 | g16377.t1 | exon | g16377.t1.exon1 | 9274030 | 9274256 |
| chr_4 | g16377 | g16377.t1 | cds | g16377.t1.CDS1 | 9274030 | 9274256 |
| chr_4 | g16377 | g16377.t1 | exon | g16377.t1.exon2 | 9275781 | 9275829 |
| chr_4 | g16377 | g16377.t1 | cds | g16377.t1.CDS2 | 9275781 | 9275829 |
| chr_4 | g16377 | g16377.t1 | exon | g16377.t1.exon3 | 9275899 | 9275976 |
| chr_4 | g16377 | g16377.t1 | cds | g16377.t1.CDS3 | 9275899 | 9275976 |
| chr_4 | g16377 | g16377.t1 | exon | g16377.t1.exon4 | 9276761 | 9276893 |
| chr_4 | g16377 | g16377.t1 | cds | g16377.t1.CDS4 | 9276761 | 9276893 |
| chr_4 | g16377 | g16377.t1 | exon | g16377.t1.exon5 | 9277571 | 9277694 |
| chr_4 | g16377 | g16377.t1 | cds | g16377.t1.CDS5 | 9277571 | 9277694 |
| chr_4 | g16377 | g16377.t1 | exon | g16377.t1.exon6 | 9277861 | 9278607 |
| chr_4 | g16377 | g16377.t1 | cds | g16377.t1.CDS6 | 9277861 | 9278607 |
| chr_4 | g16377 | g16377.t1 | exon | g16377.t1.exon7 | 9278665 | 9278971 |
| chr_4 | g16377 | g16377.t1 | cds | g16377.t1.CDS7 | 9278665 | 9278971 |
| chr_4 | g16377 | g16377.t1 | TSS | g16377.t1 | NA | NA |
| chr_4 | g16377 | g16377.t1 | TTS | g16377.t1 | NA | NA |
Sequences
>g16377.t1 Gene=g16377 Length=1665
ATGTTTTCATTACTTGCAATTGAAACATTAAAAGATTTTCCTGGTTTAGTTGGAATTTTT
GTTGCTGGTATTTTAGTGCTGCTCTCTTCATCAGCCTCAACTGGACTGAATTCAATTTCT
GCTGTGATTTCTTTTAGATTTTTGTGGCAAAATGAAACTTTCAAACTTCAAACTTCATTG
ATCCTTCGTGGTTCTGTTATAATTTTTGAATTATTCAGTTCTGCTTGCACAATAATTCCA
GTGCTTCACGAACTTGAGATAACATCAACTTATCAGAAGCAAGATTCAATCGTGAACTTC
GACTTTTTGGATCGATTTCGTTTTTGTTTTATGACAATTTTGTGGCTACCAATTGTCATT
TACATGCCAGCATTAGCATTTAATCAAACAACAGGAATTGATATTCACGTCATCACACCG
ATTTCAATGTTTATTTGTATTGTCTACACATCATTGGGTGGAATTAAAGCTGTTGTCTGG
ACTGATGTATTGCAGATAACATTAATGTATGGCACACTAACATTGATTGCAATCAAGGGT
ACTATGACTGTCGGTGGTTTTGATGTAGTTATCGAGAGAAACTTGAAAGGTGAACGATTT
GAAGCACCAATTTTTGATCTCAATCCAACAATTCGTCATTCATTTTGGACTTTAGTGATA
GGTGGAGGTTTTTTATGGCTAAATGTCAATGGAATCAATCAAGCAATGGTTCAACGTTAT
TTAAGTCTTAAAAGTATTAAAAAAGCACAACTTGGTCATTTCATTTTCACAGTTGGTGTA
ATCGCAATGATTTCATTATGCATTTACAATGGATTTCTGATTTATGCAATGTACCATGAT
TGTGATCCATTGACAACAAAATTGGCCAAAGCAAAAGATCAACTTTTACCATTGTTTGCA
ATTGAAACATTAAAAGATTTTCCTGGCTTGACTGGAGTTTTTGTTGCTGGTGTTTTTAGT
GCTGCACTTTCATCAGCTTCAACTGGATTAAACTCAATGGCTGCTGTTATTCTCATTGAC
TTTTGTGGCAATGTCAAGCTCAATAAATGGCAAACTTCTTTAATTTTAAGGGGAACAGTT
GTTGCACTTGGTGCGATTTCAGTTTTACTTGTTTATGTCGTTGAAAGGCTTGGTGCTGTG
CTACAGCTTGCTTATATGATACCAGGAGCAACAGGTGGTCCTTTGCTTGGGATTTTTGTA
ATTGGAATTTTATTGCCTTGGATTGGAGGAAAATCTGCACTTTGGTCTGTTGTTATTGGA
ACAATTACAATGTCTATAATTGTTGTTAAAGCTCAAATTGAATCAATGAGTGGAAAAATC
AAAATTCCTTTGAAACCTGTCTCAACTGATGGTTGCCATTACAACTTCACTTTTTCATCA
TCACCAATGGCAACAGCTGAAGCATTTGAAGAAGAAAGCAAGCAAATTTATCACATGTCA
TATCTTTATTATACAGTTTTTGGTGCACTTTTAGTCATCATCATTTCAGTTCTTTTAAGT
TTCATTTTTGGTTTTCAAGATGCAAGAAAAATTGATAAAAGACTTGTTGCACCTTTCATG
AGGAAATTCATTCAATTTGAAAATCAAGAAATGAAAAATGAAAATTTAAAATATGAAGGT
AGAAAATTGATGCAAGTTTATAATTTTAAAGAAATTGAAGAATAG
>g16377.t1 Gene=g16377 Length=554
MFSLLAIETLKDFPGLVGIFVAGILVLLSSSASTGLNSISAVISFRFLWQNETFKLQTSL
ILRGSVIIFELFSSACTIIPVLHELEITSTYQKQDSIVNFDFLDRFRFCFMTILWLPIVI
YMPALAFNQTTGIDIHVITPISMFICIVYTSLGGIKAVVWTDVLQITLMYGTLTLIAIKG
TMTVGGFDVVIERNLKGERFEAPIFDLNPTIRHSFWTLVIGGGFLWLNVNGINQAMVQRY
LSLKSIKKAQLGHFIFTVGVIAMISLCIYNGFLIYAMYHDCDPLTTKLAKAKDQLLPLFA
IETLKDFPGLTGVFVAGVFSAALSSASTGLNSMAAVILIDFCGNVKLNKWQTSLILRGTV
VALGAISVLLVYVVERLGAVLQLAYMIPGATGGPLLGIFVIGILLPWIGGKSALWSVVIG
TITMSIIVVKAQIESMSGKIKIPLKPVSTDGCHYNFTFSSSPMATAEAFEEESKQIYHMS
YLYYTVFGALLVIIISVLLSFIFGFQDARKIDKRLVAPFMRKFIQFENQEMKNENLKYEG
RKLMQVYNFKEIEE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 30 | g16377.t1 | CDD | cd11492 | SLC5sbd_NIS-SMVT | 79 | 502 | 1.7619E-176 |
| 6 | g16377.t1 | Gene3D | G3DSA:1.20.1730.10 | - | 53 | 513 | 5.6E-75 |
| 2 | g16377.t1 | PANTHER | PTHR42985 | SODIUM-COUPLED MONOCARBOXYLATE TRANSPORTER | 3 | 78 | 3.6E-177 |
| 4 | g16377.t1 | PANTHER | PTHR42985:SF5 | LP24461P | 3 | 78 | 3.6E-177 |
| 3 | g16377.t1 | PANTHER | PTHR42985 | SODIUM-COUPLED MONOCARBOXYLATE TRANSPORTER | 78 | 532 | 3.6E-177 |
| 5 | g16377.t1 | PANTHER | PTHR42985:SF5 | LP24461P | 78 | 532 | 3.6E-177 |
| 1 | g16377.t1 | Pfam | PF00474 | Sodium:solute symporter family | 121 | 420 | 6.8E-21 |
| 14 | g16377.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 19 | - |
| 28 | g16377.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 20 | 48 | - |
| 8 | g16377.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 49 | 59 | - |
| 26 | g16377.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 60 | 82 | - |
| 17 | g16377.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 83 | 101 | - |
| 29 | g16377.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 102 | 125 | - |
| 9 | g16377.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 126 | 136 | - |
| 20 | g16377.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 137 | 160 | - |
| 13 | g16377.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 161 | 214 | - |
| 27 | g16377.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 215 | 233 | - |
| 10 | g16377.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 234 | 253 | - |
| 22 | g16377.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 254 | 278 | - |
| 16 | g16377.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 279 | 312 | - |
| 24 | g16377.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 313 | 342 | - |
| 12 | g16377.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 343 | 353 | - |
| 25 | g16377.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 354 | 374 | - |
| 15 | g16377.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 375 | 379 | - |
| 21 | g16377.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 380 | 405 | - |
| 7 | g16377.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 406 | 411 | - |
| 19 | g16377.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 412 | 433 | - |
| 18 | g16377.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 434 | 480 | - |
| 23 | g16377.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 481 | 505 | - |
| 11 | g16377.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 506 | 554 | - |
| 42 | g16377.t1 | ProSiteProfiles | PS50283 | Sodium:solute symporter family profile. | 1 | 434 | 29.955 |
| 43 | g16377.t1 | TIGRFAM | TIGR00813 | sss: transporter, solute:sodium symporter (SSS) family | 108 | 420 | 1.0E-54 |
| 32 | g16377.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 15 | 37 | - |
| 38 | g16377.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 106 | 128 | - |
| 31 | g16377.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 138 | 160 | - |
| 34 | g16377.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 169 | 191 | - |
| 40 | g16377.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 211 | 233 | - |
| 37 | g16377.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 254 | 276 | - |
| 35 | g16377.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 312 | 334 | - |
| 36 | g16377.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 354 | 373 | - |
| 33 | g16377.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 383 | 405 | - |
| 39 | g16377.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 412 | 429 | - |
| 41 | g16377.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 483 | 505 | - |
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: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