General information for g2854.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Solute carrier family 22 member 5.
Parent gene
- The parent gene g2854 is located on chr_3: 20666950..20668009 (+ 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_3 | g2854 | g2854.t1 | TSS | g2854.t1 | 20665306 | 20665306 |
| chr_3 | g2854 | g2854.t1 | isoform | g2854.t1 | 20665428 | 20668009 |
| chr_3 | g2854 | g2854.t1 | exon | g2854.t1.exon1 | 20665428 | 20665588 |
| chr_3 | g2854 | g2854.t1 | cds | g2854.t1.CDS1 | 20665428 | 20665588 |
| chr_3 | g2854 | g2854.t1 | exon | g2854.t1.exon2 | 20665650 | 20665869 |
| chr_3 | g2854 | g2854.t1 | cds | g2854.t1.CDS2 | 20665650 | 20665869 |
| chr_3 | g2854 | g2854.t1 | exon | g2854.t1.exon3 | 20665928 | 20666031 |
| chr_3 | g2854 | g2854.t1 | cds | g2854.t1.CDS3 | 20665928 | 20666031 |
| chr_3 | g2854 | g2854.t1 | exon | g2854.t1.exon4 | 20666089 | 20666126 |
| chr_3 | g2854 | g2854.t1 | cds | g2854.t1.CDS4 | 20666089 | 20666126 |
| chr_3 | g2854 | g2854.t1 | exon | g2854.t1.exon5 | 20666769 | 20666885 |
| chr_3 | g2854 | g2854.t1 | cds | g2854.t1.CDS5 | 20666769 | 20666885 |
| chr_3 | g2854 | g2854.t1 | exon | g2854.t1.exon6 | 20666950 | 20667132 |
| chr_3 | g2854 | g2854.t1 | cds | g2854.t1.CDS6 | 20666950 | 20667132 |
| chr_3 | g2854 | g2854.t1 | exon | g2854.t1.exon7 | 20667193 | 20667497 |
| chr_3 | g2854 | g2854.t1 | cds | g2854.t1.CDS7 | 20667193 | 20667497 |
| chr_3 | g2854 | g2854.t1 | exon | g2854.t1.exon8 | 20667566 | 20668009 |
| chr_3 | g2854 | g2854.t1 | cds | g2854.t1.CDS8 | 20667566 | 20668009 |
| chr_3 | g2854 | g2854.t1 | TTS | g2854.t1 | 20668035 | 20668035 |
Sequences
>g2854.t1 Gene=g2854 Length=1572
ATGAGTGAAAAACAAAATTTTGATTTAGATGAAGTTTTAGATAAAGAAATTAAATTTGGA
AAATATCAAATAATAATTTTTGTTTTAATTGCTTTTCCAATTACTCTAAATGGGGTTTAT
AGTAGTGCTTACATTTTTACGGCAGGCAACTTGAACTATAGATGCAAAATTCCTGAGTGT
GATCTTGACAATGGAATGTTTCATGAAACATGGGTGAATTTTTCGATACCATTTGACAAT
GAATCACCACAAAAATGCAAGAAATTTCAATATATAACAAATGATAACATGTCATGCATG
GCTAATTCTTTTAACCCTGCAATAATTGAAAGTTGTGATAATTTTATCTATGAAGACGAT
GAAATTACGATACAAAATGAATTTGGCCTTAATTGCAACAAAGAGTTTTATCTATCACTT
ATTGGCACTATCAACAATATTGGACAATTATTTTGCTACTTAATCACTGGATTTATTTCT
GATAAATATGGACGAAAAATTATTATAATTCTTGGATGCATAGGAAATGGAGTTTTTGGA
GTTTTACGGGTATTTTCAAATAACTATTATGTTTTTGCAACTTTTGAATTTCTTGATGCA
CTTTTTGGATCAGCAACTTATGCAGCTGCATACATTATTGGTTTAGAATTAGTCACACCA
CAACTGAGAACAATTTCCGGTACAATTCTCAACTGCTTTTATGCTCTTGGTGGAATGATT
CTTGGTCTCGTAGCAATGTGGCTGCGTAATTACAAATCACTATTATTTGTCACATATATT
CCTGCATTCATCGTCATTGCATACACTTGGTTGCTTCCTCAAAGCATAAGATGGCTTTTA
TCAGAAGGAAGGCACGAAGATGCAAAGATAGTGCTGCGGAAAGCTTGCAAGTTAAACGGA
ACTGAAATGAGTGTGCAAACATTAAATTCATTAGATGAGAAAATTCAAATGCAAAATTCA
AACAACAATACGCTTGAGAGCGCTTCAAAGTCAGAAAAGATTTCTATCCGTGCTGTGCTG
CAAATTACTAATCTCTCATACTGTTGGTTTGCAACCATCTTCGTTTATTATGGACTCAAC
TTGAACTCTGTCTATCTCGAGTATTGGAACAAATACATAAATTTCATTTTTGTGTGTGCC
ATTGAATTGCCCGGATACTTTATAACAAACATCCTAATGGAGAAACTTGGTCGAAAGAAA
ACGCTTTTTCTTGGTATGATTGGAAGTGGACTTTTCTGCATTCTTGCTGATGTCGTACCG
GGCAGTGTTAATAAGACAATCTTTTATGTGTGCGGAAAATTGCTCATAACAATCTCATTC
AGTTGTCTTTATATCTTTACAATTGAAATTTTTCCCACCTCGTTACGACAGCGTTTTTTC
TCTATCTGCAGTATTGTTGGTCGTCTTGGCTCCATTTTAACAATGTCAACTCCACTTTTA
ATTGAAATATATCCTAGTCTTCCTTTGATTCTCTTTTCAAGTCTCTCATTTAGTTCAGCT
ATATTTCTTTGGTCACTTCCTGAAACATTAAATCGACGTTTACCCGAAACTATGAAGGAA
GCTTTTAATTAA
>g2854.t1 Gene=g2854 Length=523
MSEKQNFDLDEVLDKEIKFGKYQIIIFVLIAFPITLNGVYSSAYIFTAGNLNYRCKIPEC
DLDNGMFHETWVNFSIPFDNESPQKCKKFQYITNDNMSCMANSFNPAIIESCDNFIYEDD
EITIQNEFGLNCNKEFYLSLIGTINNIGQLFCYLITGFISDKYGRKIIIILGCIGNGVFG
VLRVFSNNYYVFATFEFLDALFGSATYAAAYIIGLELVTPQLRTISGTILNCFYALGGMI
LGLVAMWLRNYKSLLFVTYIPAFIVIAYTWLLPQSIRWLLSEGRHEDAKIVLRKACKLNG
TEMSVQTLNSLDEKIQMQNSNNNTLESASKSEKISIRAVLQITNLSYCWFATIFVYYGLN
LNSVYLEYWNKYINFIFVCAIELPGYFITNILMEKLGRKKTLFLGMIGSGLFCILADVVP
GSVNKTIFYVCGKLLITISFSCLYIFTIEIFPTSLRQRFFSICSIVGRLGSILTMSTPLL
IEIYPSLPLILFSSLSFSSAIFLWSLPETLNRRLPETMKEAFN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 32 | g2854.t1 | CDD | cd17317 | MFS_SLC22 | 112 | 490 | 4.30889E-78 |
| 6 | g2854.t1 | Coils | Coil | Coil | 308 | 328 | - |
| 5 | g2854.t1 | Gene3D | G3DSA:1.20.1250.20 | MFS general substrate transporter like domains | 100 | 522 | 3.8E-67 |
| 2 | g2854.t1 | PANTHER | PTHR24064 | SOLUTE CARRIER FAMILY 22 MEMBER | 6 | 522 | 6.9E-147 |
| 3 | g2854.t1 | PANTHER | PTHR24064:SF335 | FI24011P1-RELATED | 6 | 522 | 6.9E-147 |
| 1 | g2854.t1 | Pfam | PF00083 | Sugar (and other) transporter | 123 | 516 | 1.4E-27 |
| 13 | g2854.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 23 | - |
| 28 | g2854.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 24 | 46 | - |
| 16 | g2854.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 47 | 135 | - |
| 31 | g2854.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 136 | 155 | - |
| 8 | g2854.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 156 | 166 | - |
| 24 | g2854.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 167 | 185 | - |
| 15 | g2854.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 186 | 196 | - |
| 29 | g2854.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 197 | 217 | - |
| 7 | g2854.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 218 | 228 | - |
| 23 | g2854.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 229 | 248 | - |
| 14 | g2854.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 249 | 253 | - |
| 22 | g2854.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 254 | 272 | - |
| 9 | g2854.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 273 | 337 | - |
| 21 | g2854.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 338 | 359 | - |
| 18 | g2854.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 360 | 370 | - |
| 26 | g2854.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 371 | 389 | - |
| 12 | g2854.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 390 | 400 | - |
| 25 | g2854.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 401 | 420 | - |
| 17 | g2854.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 421 | 425 | - |
| 20 | g2854.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 426 | 447 | - |
| 10 | g2854.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 448 | 458 | - |
| 27 | g2854.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 459 | 481 | - |
| 19 | g2854.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 482 | 486 | - |
| 30 | g2854.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 487 | 506 | - |
| 11 | g2854.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 507 | 523 | - |
| 44 | g2854.t1 | ProSitePatterns | PS00216 | Sugar transport proteins signature 1. | 156 | 172 | - |
| 45 | g2854.t1 | ProSiteProfiles | PS50850 | Major facilitator superfamily (MFS) profile. | 91 | 511 | 14.419 |
| 4 | g2854.t1 | SUPERFAMILY | SSF103473 | MFS general substrate transporter | 126 | 516 | 2.09E-47 |
| 39 | g2854.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 24 | 46 | - |
| 34 | g2854.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 136 | 158 | - |
| 37 | g2854.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 168 | 185 | - |
| 42 | g2854.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 192 | 214 | - |
| 36 | g2854.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 224 | 246 | - |
| 41 | g2854.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 253 | 272 | - |
| 35 | g2854.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 338 | 360 | - |
| 38 | g2854.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 373 | 392 | - |
| 40 | g2854.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 402 | 424 | - |
| 33 | g2854.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 429 | 451 | - |
| 43 | g2854.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:0055085 | transmembrane transport | BP |
| GO:0016021 | integral component of membrane | CC |
| 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.
