Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Solute carrier family 22 member 21.

Parent gene

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 g1833 g1833.t2 isoform g1833.t2 13226045 13227653
chr_3 g1833 g1833.t2 exon g1833.t2.exon1 13226045 13226376
chr_3 g1833 g1833.t2 cds g1833.t2.CDS1 13226349 13226376
chr_3 g1833 g1833.t2 exon g1833.t2.exon2 13226812 13227214
chr_3 g1833 g1833.t2 cds g1833.t2.CDS2 13226812 13227214
chr_3 g1833 g1833.t2 exon g1833.t2.exon3 13227470 13227653
chr_3 g1833 g1833.t2 cds g1833.t2.CDS3 13227470 13227653
chr_3 g1833 g1833.t2 TSS g1833.t2 NA NA
chr_3 g1833 g1833.t2 TTS g1833.t2 NA NA

Sequences

>g1833.t2 Gene=g1833 Length=919
ATGGCTTGGCAATATGATAATTGGATTATTCTGCAACTTGTGATATCAATTCCACCAATG
ATATTGTTTATTTATTATTGGATTGTTCCTGAAAGTGTTCGTTGGTTGCTTGCAAAAAAT
CGAAATACTGAAGCAATAAAAATTTTGAAGAAAGCTGCTGAAGTCAATAAGAGCACAATT
TCTGGCTATTATCTTGGATATATATCAATTGAAAAATTTGGTCGTGTATTTGGATTTGCA
GGTTCAATGTTTCTTTGTGGAGTTACATGCATTTTATGCGGCTACAGTCACTCAATATGG
CTACAAATATCATTATTCTTAATAGGAAAATTAGGCATTACATGTTCATTCTCTATAATA
TTTGTGCACGCGACTGAAATGATGCCAACTCTTATAAGATCAAGTTGTGTTGGATTTTTT
TCAACAATGTGTAGAATTGGTGCTCTATTAAGTCCTTTTGCACCATTTTTGGCAAAATAT
TATGAGCCATTGCCTTACATTGTTTTTGGAGCAACAGCTTTATTTGGCGGTTTAATATAT
TTGAGTTTACCAGAAACATTGAATAAAAAATTGCCAAACACTGTAGAAAATGATATAATT
CAAGTAGCATTTTAGTTCTTTTATGATTTAAGCACTTTAAAAAAATTATTCACTGCATAG
ATAAGCCATAATCACCAAAATAAATGATGAACCTTGATTTCGTACACTCAAAATTACACT
AAACAATAATTTTTAGCGCATTTTTGTATAAACATGATGGGAAAGTCTCTGCGTAGATCA
GAGGACTTTAGCGCATTTTTGTCGCCTAGATCAGTTATTATAACAAGTTAAATAAAAGAA
AATTTAATGTTTTGAATACATTTTATTAATTCATAGCGTTTTGAAATGAGATATTTTATA
ATTCATGTACACGGATGAC

>g1833.t2 Gene=g1833 Length=204
MAWQYDNWIILQLVISIPPMILFIYYWIVPESVRWLLAKNRNTEAIKILKKAAEVNKSTI
SGYYLGYISIEKFGRVFGFAGSMFLCGVTCILCGYSHSIWLQISLFLIGKLGITCSFSII
FVHATEMMPTLIRSSCVGFFSTMCRIGALLSPFAPFLAKYYEPLPYIVFGATALFGGLIY
LSLPETLNKKLPNTVENDIIQVAF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
14 g1833.t2 Gene3D G3DSA:1.20.1250.20 MFS general substrate transporter like domains 1 56 1.4E-10
13 g1833.t2 Gene3D G3DSA:1.20.1250.20 MFS general substrate transporter like domains 57 200 3.7E-20
4 g1833.t2 PANTHER PTHR24064 SOLUTE CARRIER FAMILY 22 MEMBER 2 61 4.1E-53
6 g1833.t2 PANTHER PTHR24064:SF335 FI24011P1-RELATED 2 61 4.1E-53
3 g1833.t2 PANTHER PTHR24064 SOLUTE CARRIER FAMILY 22 MEMBER 60 198 4.1E-53
5 g1833.t2 PANTHER PTHR24064:SF335 FI24011P1-RELATED 60 198 4.1E-53
1 g1833.t2 Pfam PF00083 Sugar (and other) transporter 6 54 4.6E-8
2 g1833.t2 Pfam PF07690 Major Facilitator Superfamily 60 191 5.5E-9
19 g1833.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 5 -
23 g1833.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 6 29 -
17 g1833.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 30 75 -
25 g1833.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 76 97 -
18 g1833.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 98 102 -
24 g1833.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 103 124 -
15 g1833.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 125 135 -
21 g1833.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 136 158 -
20 g1833.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 159 163 -
22 g1833.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 164 183 -
16 g1833.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 184 204 -
12 g1833.t2 SUPERFAMILY SSF103473 MFS general substrate transporter 6 192 5.23E-16
7 g1833.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 7 29 -
9 g1833.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 74 96 -
8 g1833.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 103 125 -
11 g1833.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 135 157 -
10 g1833.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 164 183 -

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.

Raw TPM values