General information for g4876.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Pickpocket protein 28.
Parent gene
- The parent gene g4876 is located on chr_2: 5697128..5698833 (- 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_2 | g4876 | g4876.t1 | isoform | g4876.t1 | 5697128 | 5698833 |
| chr_2 | g4876 | g4876.t1 | exon | g4876.t1.exon1 | 5697128 | 5697243 |
| chr_2 | g4876 | g4876.t1 | cds | g4876.t1.CDS1 | 5697128 | 5697243 |
| chr_2 | g4876 | g4876.t1 | exon | g4876.t1.exon2 | 5697300 | 5697418 |
| chr_2 | g4876 | g4876.t1 | cds | g4876.t1.CDS2 | 5697300 | 5697418 |
| chr_2 | g4876 | g4876.t1 | exon | g4876.t1.exon3 | 5697476 | 5698395 |
| chr_2 | g4876 | g4876.t1 | cds | g4876.t1.CDS3 | 5697476 | 5698395 |
| chr_2 | g4876 | g4876.t1 | exon | g4876.t1.exon4 | 5698447 | 5698833 |
| chr_2 | g4876 | g4876.t1 | cds | g4876.t1.CDS4 | 5698447 | 5698833 |
| chr_2 | g4876 | g4876.t1 | TSS | g4876.t1 | NA | NA |
| chr_2 | g4876 | g4876.t1 | TTS | g4876.t1 | NA | NA |
Sequences
>g4876.t1 Gene=g4876 Length=1542
ATGAGATTTTTTTCAATCACTTCATCGCTTAGACTTTTCACATCACAAACATCAATTCAT
GGGATTCGATATTCGAACGAACCACAAAATCATAAATTTGTCCGCATTTTTTGGCTCATA
GTTTTCATTATTTCAATCGCTGGTCTTGTGTACTATGCAAAAACAGTTTATTATAAATGG
AAAATTGCACCAGATATATCAACTATGCATCAACTGAAGCCAATTCATGAAATACCCTTT
CCAGCTATCACAATTTGTTCGCCTGTAAGTATAAATAATGAGCATGTCAACTATCAATAT
GCATATACGCATATTCAATATATGAACCACAGTCACATTGATGAATTACCAAATGAAGAG
CAGAAAATTCTTTCTGCAATGTCACAGTCATGCAATCCAAGTCTATCAACAGAATTTGTC
AATCATATTAAACACACTGCAAACCAAGAGATTGTAAATTATTTGAACAACTCTTCATTT
AGTATTAATGAAGCGTTTCTTTTGTGCTTGCTGGTTAATAACACAAAAAAAAATTGCACT
GAATTAATTAGTCGAGTCGTTACGGACTATGGAATTTGTTATGTTTATAATTTGCAAGAT
TTTAATTCAATATTTAATGATCATGTGATAACTAATAATTTTAATCACTATAACCATCAC
AAAACTATAGATTGGACACTCGAAAATGGTTACAAAACAGAATTTGAAAATGCATATCCT
CATCGTATCATTAGTGACAGCAGTGTTGAATTTATTTTAAAAATTCCCAAAAATCAAACA
TACAATTTTTGTCCTCAAATGCGTAACAGTTATAAAATAATTTTTCATATGCCCAATGAA
ATTCCAACCAAATTTCACGATTACTTTTTCTCTAGCGTTGGTTCACAATTTTTCATATCA
ATGGAAGCGAGTTTTTATTCACACGACAACAGCTTGCGTGATACATCTCCTGAAATGCGG
CAATGTTATTTTGATGGCGAACGAAAATTGAAATTTTTTAAAAGCTACACTAAAGCGCAT
TGCGATCTTGAATGTTTGACCAATTTTACTATGAAAGTTTGTAACTGTGTAAAATTTTCT
ATGCCACGCATGAATAATACGCCTGTATGTGATTTAATTGATGCAAGCTGTTACAATTTA
GTTTTTCGCCAATGGCCACACAATGATGAAATATCAATAAATCAACAAATGCCCTGCAAT
TGTTTCCCAACATGCAGTAATATTAAATACAACACAAAATTGATAGACCATATAAATATT
GATGATTCATTTAATCGTGATGTGACAGAAAGAAAGAAAGCAACTAATGATTCAGAAATT
TTTACTGCAATTGTAATTGTCTTTGAGGATTTTTTGATAACAAAAAAAATTGGATATGTT
GGTTACAAATTGGAAAATTTCATTGCAGAAATTGGTGGCTTATTAGGTTTATTTATGGGA
TCATCATTATTATCAATTGTTGAAATGTTTTATTTGTGTATTAAAGGAATAATTCAAAAG
AGAAAGAAAAAAATAGCTTTAAGGTTGAGATTTTTTCATTGA
>g4876.t1 Gene=g4876 Length=513
MRFFSITSSLRLFTSQTSIHGIRYSNEPQNHKFVRIFWLIVFIISIAGLVYYAKTVYYKW
KIAPDISTMHQLKPIHEIPFPAITICSPVSINNEHVNYQYAYTHIQYMNHSHIDELPNEE
QKILSAMSQSCNPSLSTEFVNHIKHTANQEIVNYLNNSSFSINEAFLLCLLVNNTKKNCT
ELISRVVTDYGICYVYNLQDFNSIFNDHVITNNFNHYNHHKTIDWTLENGYKTEFENAYP
HRIISDSSVEFILKIPKNQTYNFCPQMRNSYKIIFHMPNEIPTKFHDYFFSSVGSQFFIS
MEASFYSHDNSLRDTSPEMRQCYFDGERKLKFFKSYTKAHCDLECLTNFTMKVCNCVKFS
MPRMNNTPVCDLIDASCYNLVFRQWPHNDEISINQQMPCNCFPTCSNIKYNTKLIDHINI
DDSFNRDVTERKKATNDSEIFTAIVIVFEDFLITKKIGYVGYKLENFIAEIGGLLGLFMG
SSLLSIVEMFYLCIKGIIQKRKKKIALRLRFFH
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 14 | g4876.t1 | Gene3D | G3DSA:1.10.287.770 | - | 35 | 490 | 5.5E-51 |
| 11 | g4876.t1 | Gene3D | G3DSA:2.60.470.10 | - | 65 | 460 | 5.5E-51 |
| 12 | g4876.t1 | Gene3D | G3DSA:1.10.3590.10 | - | 89 | 270 | 5.5E-51 |
| 13 | g4876.t1 | Gene3D | G3DSA:1.10.287.820 | - | 314 | 405 | 5.5E-51 |
| 2 | g4876.t1 | PANTHER | PTHR11690 | AMILORIDE-SENSITIVE SODIUM CHANNEL-RELATED | 5 | 500 | 2.7E-60 |
| 3 | g4876.t1 | PANTHER | PTHR11690:SF243 | PICKPOCKET 12-RELATED | 5 | 500 | 2.7E-60 |
| 6 | g4876.t1 | PRINTS | PR01078 | Amiloride-sensitive sodium channel alpha-subunit signature | 35 | 52 | 1.6E-8 |
| 7 | g4876.t1 | PRINTS | PR01078 | Amiloride-sensitive sodium channel alpha-subunit signature | 76 | 92 | 1.6E-8 |
| 5 | g4876.t1 | PRINTS | PR01078 | Amiloride-sensitive sodium channel alpha-subunit signature | 181 | 197 | 1.6E-8 |
| 4 | g4876.t1 | PRINTS | PR01078 | Amiloride-sensitive sodium channel alpha-subunit signature | 472 | 488 | 1.6E-8 |
| 1 | g4876.t1 | Pfam | PF00858 | Amiloride-sensitive sodium channel | 13 | 492 | 5.2E-71 |
| 19 | g4876.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 17 | - |
| 20 | g4876.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 2 | - |
| 21 | g4876.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 3 | 13 | - |
| 25 | g4876.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 14 | 17 | - |
| 17 | g4876.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 18 | 32 | - |
| 23 | g4876.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 33 | 53 | - |
| 15 | g4876.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 54 | 439 | - |
| 24 | g4876.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 440 | 462 | - |
| 18 | g4876.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 463 | 473 | - |
| 22 | g4876.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 474 | 494 | - |
| 16 | g4876.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 495 | 513 | - |
| 9 | g4876.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 34 | 53 | - |
| 8 | g4876.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 440 | 462 | - |
| 10 | g4876.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 472 | 494 | - |
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:0005272 | sodium channel activity | MF |
| GO:0006814 | sodium ion transport | BP |
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