General information for g2003.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as b-0,+-type amino acid transporter 1.
Parent gene
- The parent gene g2003 is located on chr_3: 14362966..14372625 (- 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 | g2003 | g2003.t1 | TTS | g2003.t1 | 14361323 | 14361323 |
| chr_3 | g2003 | g2003.t1 | isoform | g2003.t1 | 14361904 | 14372625 |
| chr_3 | g2003 | g2003.t1 | exon | g2003.t1.exon1 | 14361904 | 14361974 |
| chr_3 | g2003 | g2003.t1 | cds | g2003.t1.CDS1 | 14361904 | 14361974 |
| chr_3 | g2003 | g2003.t1 | exon | g2003.t1.exon2 | 14362040 | 14362683 |
| chr_3 | g2003 | g2003.t1 | cds | g2003.t1.CDS2 | 14362040 | 14362683 |
| chr_3 | g2003 | g2003.t1 | exon | g2003.t1.exon3 | 14362753 | 14362897 |
| chr_3 | g2003 | g2003.t1 | cds | g2003.t1.CDS3 | 14362753 | 14362897 |
| chr_3 | g2003 | g2003.t1 | exon | g2003.t1.exon4 | 14362966 | 14363091 |
| chr_3 | g2003 | g2003.t1 | cds | g2003.t1.CDS4 | 14362966 | 14363091 |
| chr_3 | g2003 | g2003.t1 | exon | g2003.t1.exon5 | 14363160 | 14363402 |
| chr_3 | g2003 | g2003.t1 | cds | g2003.t1.CDS5 | 14363160 | 14363402 |
| chr_3 | g2003 | g2003.t1 | exon | g2003.t1.exon6 | 14365013 | 14365114 |
| chr_3 | g2003 | g2003.t1 | cds | g2003.t1.CDS6 | 14365013 | 14365114 |
| chr_3 | g2003 | g2003.t1 | exon | g2003.t1.exon7 | 14365438 | 14365491 |
| chr_3 | g2003 | g2003.t1 | cds | g2003.t1.CDS7 | 14365438 | 14365491 |
| chr_3 | g2003 | g2003.t1 | exon | g2003.t1.exon8 | 14365563 | 14365625 |
| chr_3 | g2003 | g2003.t1 | cds | g2003.t1.CDS8 | 14365563 | 14365625 |
| chr_3 | g2003 | g2003.t1 | exon | g2003.t1.exon9 | 14366695 | 14366835 |
| chr_3 | g2003 | g2003.t1 | cds | g2003.t1.CDS9 | 14366695 | 14366835 |
| chr_3 | g2003 | g2003.t1 | exon | g2003.t1.exon10 | 14372586 | 14372625 |
| chr_3 | g2003 | g2003.t1 | cds | g2003.t1.CDS10 | 14372586 | 14372625 |
| chr_3 | g2003 | g2003.t1 | TSS | g2003.t1 | 14372675 | 14372675 |
Sequences
>g2003.t1 Gene=g2003 Length=1629
ATGTTTCAGAATGCTTTTCAAGCAAATCATTTACAAAATGGACAAAATGGAGCAGTCAAA
GATATTTCAAATGGATGGAATAACAACAATCACAACATCACAACTGACGGCACAGTTAAA
AATGCCACAGCAAATTTTCGTGGAAGGACGACCGAAACGACAGCGTCCGACCCATCAGGG
GCCAGGGGGGTGCGGATCTCGATGGAGAGATCGGGCTCAAAGACGAAGGACACTATTCAA
CTCGAGAAACGGATGGGGTTGTTCAGTGGGATTGCTCTAATCGTTGGAACGATGATAGGC
TCAGGAATTTTCGTATCGCCAAGTGGATTGCTTGTCAGAACAGGCTCTGTTGGCATTAGT
TTCATTATCTGGATGGCGTGCGGTCTTCTCTCATTGTTAGGTGCGCTCTCGTATGCGGAG
TTAGGCACAATGAATACATCTTCAGGTGCGGAGTGGGCATATTTTATGGACGCATTTGGA
TCAGCACCGGCATTTTTGTTCAGTTGGGTATCGACACTTGTCCTGAAGCCCTCACAAATG
GCAATTATATGTTTATCATTTGCGCAATATGCCGTCGAAGCTTTTGTTTCTGAGTGCGAT
CCACCTCCGATTGTTGTAAAAATGGTTGCCTTGCTGGCTATCGTATGCATCTTGTTTGTT
AATTGTTACAGTGTAAATTTGGGAATGGCTGTACAAAATGTATTTACATCTGCAAAAATG
GTTGCTGTTTTGATTGTTATTTGTGGCGGTGCATGGAAACTTTTTCAAGGAAACACACAA
CACTTGTCAAATGCTTTTGATAATCCAACACCATCTATGGGAGTAATTGCCACAGCATTT
TATACAGGCTTATGGGCGTATGATGGTTGGAATAATTTAAATTATGTCACTGAGGAAATA
CAAAATCCCAGCAAAAATTTACCGAGATCAATTATGATTGCTATTCCATTGGTTACGCTC
TGCTACGCTTTAATCAACATTTCCTATCTTGCCGCAATGTCGCCGCAGGAGATGATCGAA
TCCGAAGCTGTTGCTGTCACGTTCGGAAATCGTATTTTAGGAATGTTTGCGTGGATAATG
CCACTGAGTGTTACAATAAGCACTTTTGGCTCAGCAAATGGAACATTATTTGCGGCAGGA
AGACTTTGCTTTGCTGCTTCACGAGAGGGACATCTTCTTGATATTCTATCTTATGTTCAT
GTTCGTCGTTTAACTCCTGCACCAGGTCTAATTTTTCACTCTCTTATTGCGTCTGCGATG
GTGCTTCATGGCACTATTGACTCATTAATTGACTTCTTTAGCTTTACGGCTTGGATATTT
TATGGAGGTTCAATGTTTGCACTGATCGTCATGCGCTTCACAAAACCGAACTATCCGCGC
CCTTATAAAGTGCCAATTATCATTCCTGTAATTGTTCTTGTGATTTCGGCTTATTTGGTC
ATTGGTCCGATCATCGATAAACCACAAATTGAGTATTTGTATACGGTTCTTTTTATTCTT
CTTGGACTTGTTCTCTATTTGCCATTCGTTCGTTGGCGTATGCATCCTGTATTCATGAAT
AAAGTTACAATTTTCTTTCAAATGCTCTTTGAAGTTGTTCCTACAAATCACATGGCAATG
TTCGACTAA
>g2003.t1 Gene=g2003 Length=542
MFQNAFQANHLQNGQNGAVKDISNGWNNNNHNITTDGTVKNATANFRGRTTETTASDPSG
ARGVRISMERSGSKTKDTIQLEKRMGLFSGIALIVGTMIGSGIFVSPSGLLVRTGSVGIS
FIIWMACGLLSLLGALSYAELGTMNTSSGAEWAYFMDAFGSAPAFLFSWVSTLVLKPSQM
AIICLSFAQYAVEAFVSECDPPPIVVKMVALLAIVCILFVNCYSVNLGMAVQNVFTSAKM
VAVLIVICGGAWKLFQGNTQHLSNAFDNPTPSMGVIATAFYTGLWAYDGWNNLNYVTEEI
QNPSKNLPRSIMIAIPLVTLCYALINISYLAAMSPQEMIESEAVAVTFGNRILGMFAWIM
PLSVTISTFGSANGTLFAAGRLCFAASREGHLLDILSYVHVRRLTPAPGLIFHSLIASAM
VLHGTIDSLIDFFSFTAWIFYGGSMFALIVMRFTKPNYPRPYKVPIIIPVIVLVISAYLV
IGPIIDKPQIEYLYTVLFILLGLVLYLPFVRWRMHPVFMNKVTIFFQMLFEVVPTNHMAM
FD
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 15 | g2003.t1 | Gene3D | G3DSA:1.20.1740.10 | - | 80 | 531 | 1.3E-88 |
| 2 | g2003.t1 | PANTHER | PTHR11785:SF354 | B(0,+)-TYPE AMINO ACID TRANSPORTER 1 | 70 | 537 | 1.1E-186 |
| 3 | g2003.t1 | PANTHER | PTHR11785 | AMINO ACID TRANSPORTER | 70 | 537 | 1.1E-186 |
| 43 | g2003.t1 | PIRSF | PIRSF006060 | AA_transporter | 61 | 530 | 1.5E-74 |
| 1 | g2003.t1 | Pfam | PF13520 | Amino acid permease | 86 | 491 | 3.4E-54 |
| 19 | g2003.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 84 | - |
| 37 | g2003.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 85 | 105 | - |
| 29 | g2003.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 106 | 116 | - |
| 32 | g2003.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 117 | 139 | - |
| 22 | g2003.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 140 | 150 | - |
| 38 | g2003.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 151 | 170 | - |
| 23 | g2003.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 171 | 203 | - |
| 41 | g2003.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 204 | 222 | - |
| 17 | g2003.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 223 | 233 | - |
| 39 | g2003.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 234 | 252 | - |
| 25 | g2003.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 253 | 271 | - |
| 36 | g2003.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 272 | 290 | - |
| 20 | g2003.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 291 | 310 | - |
| 30 | g2003.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 311 | 332 | - |
| 28 | g2003.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 333 | 351 | - |
| 40 | g2003.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 352 | 384 | - |
| 16 | g2003.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 385 | 403 | - |
| 42 | g2003.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 404 | 426 | - |
| 27 | g2003.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 427 | 431 | - |
| 35 | g2003.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 432 | 454 | - |
| 21 | g2003.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 455 | 465 | - |
| 34 | g2003.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 466 | 485 | - |
| 26 | g2003.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 486 | 490 | - |
| 33 | g2003.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 491 | 510 | - |
| 18 | g2003.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 511 | 521 | - |
| 31 | g2003.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 522 | 541 | - |
| 24 | g2003.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 542 | 542 | - |
| 11 | g2003.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 85 | 107 | - |
| 7 | g2003.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 117 | 139 | - |
| 6 | g2003.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 152 | 174 | - |
| 9 | g2003.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 204 | 226 | - |
| 10 | g2003.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 233 | 255 | - |
| 4 | g2003.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 270 | 287 | - |
| 14 | g2003.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 310 | 332 | - |
| 12 | g2003.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 352 | 374 | - |
| 5 | g2003.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 429 | 451 | - |
| 8 | g2003.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 466 | 485 | - |
| 13 | g2003.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 492 | 514 | - |
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 K13868 (solute carrier family 7 (L-type amino acid transporter), member 9/15)
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.
