General information for g3175.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Y+L amino acid transporter 2.
Parent gene
- The parent gene g3175 is located on chr_3: 23445221..23447549 (- 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 | g3175 | g3175.t1 | TTS | g3175.t1 | 23444014 | 23444014 |
| chr_3 | g3175 | g3175.t1 | isoform | g3175.t1 | 23444485 | 23446284 |
| chr_3 | g3175 | g3175.t1 | exon | g3175.t1.exon1 | 23444485 | 23445221 |
| chr_3 | g3175 | g3175.t1 | cds | g3175.t1.CDS1 | 23444485 | 23445221 |
| chr_3 | g3175 | g3175.t1 | exon | g3175.t1.exon2 | 23445363 | 23445836 |
| chr_3 | g3175 | g3175.t1 | cds | g3175.t1.CDS2 | 23445363 | 23445836 |
| chr_3 | g3175 | g3175.t1 | exon | g3175.t1.exon3 | 23445908 | 23446007 |
| chr_3 | g3175 | g3175.t1 | cds | g3175.t1.CDS3 | 23445908 | 23446007 |
| chr_3 | g3175 | g3175.t1 | exon | g3175.t1.exon4 | 23446063 | 23446284 |
| chr_3 | g3175 | g3175.t1 | cds | g3175.t1.CDS4 | 23446063 | 23446284 |
| chr_3 | g3175 | g3175.t1 | TSS | g3175.t1 | 23446668 | 23446668 |
Sequences
>g3175.t1 Gene=g3175 Length=1533
ATGCCCAATTTAGTTGAATTAAATAGTCCCACAGATACGGTCATGGAACTCGTACAATCT
CCATCAAATACAGATTCTTTGAAAGCTGGTAGTTCAATACAGCAAGATGACGACAATTCA
CCAAAAGAACGGGTTAAAATGAAAAAAGAACTTGGTCTATTAGAAGGATGTGCAATTATT
TTAGGAATTATTTTTGGTTCTGGCATTTTTATTTCACCGAAAGGCGTAATTAAAGAAGTG
AATGCACCAGGAACTAGTTTAGTTATTTGGACACTTTGTGGCTTACTATCGATGATTGGA
GCACTTTGCTATGCAGAATTAGGTTGCTGCATTCCCAAGTCAGGAGGTGATTATGCGTAC
ATAAATGAAGCTTTTGGCGACTTACCAAGTTTTCTCTACATCTATGATGCGACTGTGATT
TTTGTTCCTGCAACAAATGCTATAATGTCACTTACATTCGCTAATTACGTGTTACAGCCA
TTTTACGCAGGAGAGTGCAAAGTGCCTGAACTCGCTGCTCAATTACTTGCTGCAGCCACT
ATATGTGGTTTGACCTATTTAAACTCTTTTAATGTTCGTGCGACTACAAAAATGCAAAAC
GTCATCATGTTCACTAAAATTGCTGCTCTCGTAATGATCATAATCATTGGTCTTGGATAT
ATGTCATTGGGTCATACAGAAAATTTTGACAATGCATTTGAAAATTCTGAAACTAATCCT
GCGAAATTATCGGTTGCATTCTATTCTGGCATCTTTTCTTATGCAGGATGGAATTATCTA
AACTTTATGACTGAAGAACTGAGAAATCCATATAAGAATCTTCCACGAGCTATTTACATC
AGTTTACCTCTTGTTACAATCATCTATGTATTAGCAAATGTTGCTTATTTAGCTGTTTTG
ACACCTCAAGAAATGGTCGCAAGTAATGCAATTGCAGTATCTTTTGGAGATAAAGTACTC
TCGTATGGTTCATGGATAATACCAATTATGGTAGCAATTTCTGCATTCGGAGGTCTCTCA
GTTCATATAATGACAAGTTCACGAATGTGTTTTGTTTCCGCTCGGAATGGACATATGCCT
GAACTTTTGAGTTTTATTAACGTTAAACGTTTTACCCCTACACCTTCTTTGGTATTTTTA
TGCGTATTAAGTCTCGTCTATCTGTTCATCGGTGATGTTTATGTATTGATCACATATTCT
AGCATCGTCGAAACATTCTTTATAATGATGAGTGTTTCTGGAGTTTTATATTTTCGTTGG
AAACGACCCGATATGGCACGTCCTATAAAAGTTAATATATCAGTTCCAATAATTTTTGTT
GGAATTTGCATCTTTCTCATTATTGTGCCAGTTTTTGATGCACCTTGGGAAGTTTTCATG
GGTTGTTTCATTACTTTAACAGGCGTTCCTATTTATTTGATCTGTATTGCGTGGAAACGT
AAGCCTAAAAATTTTCAAAATGTCATTGATAAACTCACTATCAACATGCAAAAATTATTC
ATGAGTGCCAAAGAAGAGCAAGAGATCGATTAA
>g3175.t1 Gene=g3175 Length=510
MPNLVELNSPTDTVMELVQSPSNTDSLKAGSSIQQDDDNSPKERVKMKKELGLLEGCAII
LGIIFGSGIFISPKGVIKEVNAPGTSLVIWTLCGLLSMIGALCYAELGCCIPKSGGDYAY
INEAFGDLPSFLYIYDATVIFVPATNAIMSLTFANYVLQPFYAGECKVPELAAQLLAAAT
ICGLTYLNSFNVRATTKMQNVIMFTKIAALVMIIIIGLGYMSLGHTENFDNAFENSETNP
AKLSVAFYSGIFSYAGWNYLNFMTEELRNPYKNLPRAIYISLPLVTIIYVLANVAYLAVL
TPQEMVASNAIAVSFGDKVLSYGSWIIPIMVAISAFGGLSVHIMTSSRMCFVSARNGHMP
ELLSFINVKRFTPTPSLVFLCVLSLVYLFIGDVYVLITYSSIVETFFIMMSVSGVLYFRW
KRPDMARPIKVNISVPIIFVGICIFLIIVPVFDAPWEVFMGCFITLTGVPIYLICIAWKR
KPKNFQNVIDKLTINMQKLFMSAKEEQEID
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 18 | g3175.t1 | Gene3D | G3DSA:1.20.1740.10 | - | 45 | 499 | 1.3E-90 |
| 16 | g3175.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 22 | 42 | - |
| 17 | g3175.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 22 | 36 | - |
| 2 | g3175.t1 | PANTHER | PTHR11785:SF240 | GH08870P | 35 | 509 | 1.6E-256 |
| 3 | g3175.t1 | PANTHER | PTHR11785 | AMINO ACID TRANSPORTER | 35 | 509 | 1.6E-256 |
| 44 | g3175.t1 | PIRSF | PIRSF006060 | AA_transporter | 28 | 496 | 1.5E-74 |
| 1 | g3175.t1 | Pfam | PF13520 | Amino acid permease | 51 | 452 | 4.1E-58 |
| 23 | g3175.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 50 | - |
| 35 | g3175.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 51 | 72 | - |
| 28 | g3175.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 73 | 86 | - |
| 37 | g3175.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 87 | 111 | - |
| 24 | g3175.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 112 | 131 | - |
| 43 | g3175.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 132 | 151 | - |
| 30 | g3175.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 152 | 170 | - |
| 33 | g3175.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 171 | 189 | - |
| 25 | g3175.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 190 | 200 | - |
| 34 | g3175.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 201 | 223 | - |
| 29 | g3175.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 224 | 242 | - |
| 42 | g3175.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 243 | 260 | - |
| 21 | g3175.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 261 | 279 | - |
| 38 | g3175.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 280 | 299 | - |
| 27 | g3175.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 300 | 318 | - |
| 32 | g3175.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 319 | 339 | - |
| 20 | g3175.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 340 | 370 | - |
| 40 | g3175.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 371 | 390 | - |
| 31 | g3175.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 391 | 395 | - |
| 39 | g3175.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 396 | 419 | - |
| 22 | g3175.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 420 | 430 | - |
| 36 | g3175.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 431 | 452 | - |
| 26 | g3175.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 453 | 457 | - |
| 41 | g3175.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 458 | 478 | - |
| 19 | g3175.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 479 | 510 | - |
| 14 | g3175.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 51 | 73 | - |
| 6 | g3175.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 88 | 110 | - |
| 10 | g3175.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 131 | 153 | - |
| 12 | g3175.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 168 | 190 | - |
| 8 | g3175.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 202 | 224 | - |
| 11 | g3175.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 244 | 264 | - |
| 15 | g3175.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 277 | 299 | - |
| 9 | g3175.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 319 | 341 | - |
| 4 | g3175.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 376 | 398 | - |
| 7 | g3175.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 402 | 420 | - |
| 13 | g3175.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 433 | 452 | - |
| 5 | g3175.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 456 | 478 | - |
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 transcript has been annotated with K13780 (solute carrier family 7 (L-type amino acid transporter), member 5)
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.
