General information for g3779.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Prostatic acid phosphatase.
Parent gene
- The parent gene g3779 is located on chr_3: 27945729..27946481 (- 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 | g3779 | g3779.t1 | TTS | g3779.t1 | 27944355 | 27944355 |
| chr_3 | g3779 | g3779.t1 | isoform | g3779.t1 | 27944725 | 27946481 |
| chr_3 | g3779 | g3779.t1 | exon | g3779.t1.exon1 | 27944725 | 27945653 |
| chr_3 | g3779 | g3779.t1 | cds | g3779.t1.CDS1 | 27944725 | 27945653 |
| chr_3 | g3779 | g3779.t1 | exon | g3779.t1.exon2 | 27945711 | 27945858 |
| chr_3 | g3779 | g3779.t1 | cds | g3779.t1.CDS2 | 27945711 | 27945858 |
| chr_3 | g3779 | g3779.t1 | exon | g3779.t1.exon3 | 27946157 | 27946255 |
| chr_3 | g3779 | g3779.t1 | cds | g3779.t1.CDS3 | 27946157 | 27946255 |
| chr_3 | g3779 | g3779.t1 | exon | g3779.t1.exon4 | 27946374 | 27946481 |
| chr_3 | g3779 | g3779.t1 | cds | g3779.t1.CDS4 | 27946374 | 27946481 |
| chr_3 | g3779 | g3779.t1 | TSS | g3779.t1 | 27946671 | 27946671 |
Sequences
>g3779.t1 Gene=g3779 Length=1284
ATGCTTCGCATAAAAATATTTACACTGTTTGTTATAATACTTTTAAATTTAAATGTGTTG
ATTCATTGTGCCATAGAAAATAATGGGAAACTGATTGCTGCGTCGATTATATTTCGACAT
GGTGATAGGACTCCTGTGGAACCTTATCCCAATGACCCATATAAAGACCAATCACTTTGG
CCAGCACATTTCGGTCAATTAACGAATACTGGCAAAAGGCAGCATTTTGAACTTGGAAAA
TGGTTTCGTGCACGTTACAATAGTTTAGTAAGCGATAAATATAATCCTGATGAAATGCTT
GTACGTTCAACAGATATGGATCGTACGCTCATGTCGGCTATGAGTAATTTAGCAGGCTTT
TATCCACCAAAAGATCTCGATATATGGAATGAAGAAATACAATGGCAACCGATCCCAGTT
CATACTACTCCAGAAAAACTAGATGAGATTCTAGCGGCAAAAAAATCTTGTCCCGTTTAT
GATTATGAATTAAAGAAGCTCTATAAATCACCAGAGTTCAAAGCCTACGATCAAAAGTAC
AAACCAATCTATAAATATCTGACACAGTATGCAGGAAAAAAAGTTGACTCGATTCAGAGT
GTACAAAATATTTATTCGTGTTTGCACATTGAACAAATTTATAATTTTACTTTGCCCGAA
TGGACAAAGGAAGTATTTCCTGATAAGATGTTTGAAATTTCTGGACTATCATTTGCTGTC
AAAACATACACACCGTTACTTGCACGTTTAAAGACAGGTCCATTATTGAAAGAAATTTTA
AATCTCTTTCAAAACAAAACTGAGGGAAAAAAGACAAAAAATTTATATATTTATAGTGCA
CATGATACGACGGTTGCAAACATGCTAAATACGCTTGGTGTTTTTAAACTACTCGGCTAT
CACAATCCACCTTATACATCACATATTTTATTTGAATTAATTGAGAAGAATAACGATTAC
TTTGTTCAAGTTTTTTATCGCAACACAACTGGTGATCCTTTATTATTAAATCTTCCATGC
GGTACACTATGCCCTTTGAATCAAATGTTTAAAACATATAAGGATGTTTTACCGATAAAT
TGGGAAGAAGAATGTCAACTTTCTCTTCTTCAAATGCCTCTTGATATAAATGTTGAGAAC
TCATTGAGTTTGATGACTATATTTAGCTTCATTGCATTAATGCTGTTTGTTGGTGTGATT
GTTCTATTTATTGCAACAGTTTATAAACGTCGTGATTATTTGAGTGAAGATAAATGGAAC
AGATGGGGCAATGAATGGAATTGA
>g3779.t1 Gene=g3779 Length=427
MLRIKIFTLFVIILLNLNVLIHCAIENNGKLIAASIIFRHGDRTPVEPYPNDPYKDQSLW
PAHFGQLTNTGKRQHFELGKWFRARYNSLVSDKYNPDEMLVRSTDMDRTLMSAMSNLAGF
YPPKDLDIWNEEIQWQPIPVHTTPEKLDEILAAKKSCPVYDYELKKLYKSPEFKAYDQKY
KPIYKYLTQYAGKKVDSIQSVQNIYSCLHIEQIYNFTLPEWTKEVFPDKMFEISGLSFAV
KTYTPLLARLKTGPLLKEILNLFQNKTEGKKTKNLYIYSAHDTTVANMLNTLGVFKLLGY
HNPPYTSHILFELIEKNNDYFVQVFYRNTTGDPLLLNLPCGTLCPLNQMFKTYKDVLPIN
WEEECQLSLLQMPLDINVENSLSLMTIFSFIALMLFVGVIVLFIATVYKRRDYLSEDKWN
RWGNEWN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 14 | g3779.t1 | CDD | cd07061 | HP_HAP_like | 36 | 327 | 1.56291E-48 |
| 6 | g3779.t1 | Gene3D | G3DSA:3.40.50.1240 | - | 30 | 369 | 2.0E-112 |
| 2 | g3779.t1 | PANTHER | PTHR11567 | ACID PHOSPHATASE-RELATED | 5 | 366 | 4.1E-99 |
| 3 | g3779.t1 | PANTHER | PTHR11567:SF183 | GH28721P-RELATED | 5 | 366 | 4.1E-99 |
| 1 | g3779.t1 | Pfam | PF00328 | Histidine phosphatase superfamily (branch 2) | 56 | 326 | 1.3E-27 |
| 9 | g3779.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 23 | - |
| 10 | g3779.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 5 | - |
| 11 | g3779.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 6 | 15 | - |
| 13 | g3779.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 16 | 23 | - |
| 8 | g3779.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 24 | 381 | - |
| 12 | g3779.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 382 | 408 | - |
| 7 | g3779.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 409 | 427 | - |
| 17 | g3779.t1 | ProSitePatterns | PS00616 | Histidine acid phosphatases phosphohistidine signature. | 31 | 45 | - |
| 16 | g3779.t1 | ProSitePatterns | PS00778 | Histidine acid phosphatases active site signature. | 275 | 291 | - |
| 4 | g3779.t1 | SUPERFAMILY | SSF53254 | Phosphoglycerate mutase-like | 30 | 365 | 1.86E-95 |
| 5 | g3779.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 23 | - |
| 15 | g3779.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 382 | 404 | - |
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:0003993 | acid phosphatase activity | MF |
KEGG
Orthology
- This transcript has been annotated with K14410 (lysosomal acid phosphatase)
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.
