General information for g17573.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Pterin-4-alpha-carbinolamine dehydratase.
Parent gene
- The parent gene g17573 is located on chr_4: 13958900..13972173 (+ 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_4 | g17573 | g17573.t2 | isoform | g17573.t2 | 13957867 | 13972173 |
| chr_4 | g17573 | g17573.t2 | exon | g17573.t2.exon1 | 13957867 | 13957918 |
| chr_4 | g17573 | g17573.t2 | cds | g17573.t2.CDS1 | 13957867 | 13957918 |
| chr_4 | g17573 | g17573.t2 | exon | g17573.t2.exon2 | 13958070 | 13958176 |
| chr_4 | g17573 | g17573.t2 | cds | g17573.t2.CDS2 | 13958070 | 13958176 |
| chr_4 | g17573 | g17573.t2 | TSS | g17573.t2 | 13958237 | 13958237 |
| chr_4 | g17573 | g17573.t2 | exon | g17573.t2.exon3 | 13958239 | 13958420 |
| chr_4 | g17573 | g17573.t2 | cds | g17573.t2.CDS3 | 13958239 | 13958420 |
| chr_4 | g17573 | g17573.t2 | exon | g17573.t2.exon4 | 13958478 | 13958582 |
| chr_4 | g17573 | g17573.t2 | cds | g17573.t2.CDS4 | 13958478 | 13958582 |
| chr_4 | g17573 | g17573.t2 | TTS | g17573.t2 | 13958726 | 13958726 |
| chr_4 | g17573 | g17573.t2 | exon | g17573.t2.exon5 | 13958900 | 13958961 |
| chr_4 | g17573 | g17573.t2 | cds | g17573.t2.CDS5 | 13958900 | 13958961 |
| chr_4 | g17573 | g17573.t2 | exon | g17573.t2.exon6 | 13959022 | 13959255 |
| chr_4 | g17573 | g17573.t2 | cds | g17573.t2.CDS6 | 13959022 | 13959255 |
| chr_4 | g17573 | g17573.t2 | exon | g17573.t2.exon7 | 13959313 | 13959656 |
| chr_4 | g17573 | g17573.t2 | cds | g17573.t2.CDS7 | 13959313 | 13959656 |
| chr_4 | g17573 | g17573.t2 | exon | g17573.t2.exon8 | 13962101 | 13962108 |
| chr_4 | g17573 | g17573.t2 | cds | g17573.t2.CDS8 | 13962101 | 13962108 |
| chr_4 | g17573 | g17573.t2 | exon | g17573.t2.exon9 | 13967304 | 13967455 |
| chr_4 | g17573 | g17573.t2 | cds | g17573.t2.CDS9 | 13967304 | 13967455 |
| chr_4 | g17573 | g17573.t2 | exon | g17573.t2.exon10 | 13967953 | 13968106 |
| chr_4 | g17573 | g17573.t2 | cds | g17573.t2.CDS10 | 13967953 | 13968106 |
| chr_4 | g17573 | g17573.t2 | exon | g17573.t2.exon11 | 13968165 | 13968233 |
| chr_4 | g17573 | g17573.t2 | cds | g17573.t2.CDS11 | 13968165 | 13968233 |
| chr_4 | g17573 | g17573.t2 | exon | g17573.t2.exon12 | 13969394 | 13969435 |
| chr_4 | g17573 | g17573.t2 | cds | g17573.t2.CDS12 | 13969394 | 13969435 |
| chr_4 | g17573 | g17573.t2 | exon | g17573.t2.exon13 | 13970038 | 13970914 |
| chr_4 | g17573 | g17573.t2 | cds | g17573.t2.CDS13 | 13970038 | 13970914 |
| chr_4 | g17573 | g17573.t2 | exon | g17573.t2.exon14 | 13972030 | 13972173 |
| chr_4 | g17573 | g17573.t2 | cds | g17573.t2.CDS14 | 13972030 | 13972173 |
Sequences
>g17573.t2 Gene=g17573 Length=2532
ATGCAATCTGTATTCAAGGTTTTCAAACCAGTTGCATTTCTTCATTTAAAAAGTTGTATT
AGTCACCAATCATGGTTCATTAACAATCATGTAAAAACAACATTATTTTTGAAACCTGAT
TTCACTTTGCAACGTCAATTCAGTAAGAAAACAAAAATGGCAAAGTTGACAGAACAAGAA
CGTGCTGAGTTATTAGAACCACTTTTGAAAACTGGTTGGTCAATGGTTAAAGGACGTGAT
GCAATTTATAAGGAATTTATGTTTAAGAATTTTAATGAAGCGTTTGGTTTCATGAGTCGG
GTTGCTTTGCTTGCTGATAAAATGGATCATCACCCGGAATGGTTTAACGTGTATAATAAA
GTTCAGGTAACAATGTCAACTCATGATTGTGGTGGTCTGAGCACTCGTGATATTAAAGTT
GCTACATTTATGAATGACATTACCAACGTAACAATTTTCTTTCGTGGACCAATCGAAGTT
ATTATTTTAATTCATAATTTTCTTTTAAGAATGAGAATCCCGTATATGAAAATTTTAGTT
TATATTCTCACTTTCGCGGGATATTGTTATTCCGGTTATGGAAGTGGTATGTTAAAATCA
TTAAGAGATGCTGTCCTCAGTGCTGAATTTATATTTGGTGATTTCTTTAAGAATTTCATA
ACTCTTAGTAAAAAATTTCAATCAGTTCATGAGATTTTTGATACAGCTGTAGAAGAAAAT
TGTGTTTTTAAATGTCCTGGAAATCCCGACATAAGGCCTAAACCAAATAAACTTCATGTA
CCATCAAGTGATTCTTGTGGTTCACTTGGATTGAAAATTAATACCGATTATTTACCAGCA
CCAGAGATGGCAAAATGCTGTGATGCTCATGACATTTGCTATGAGACATGTATTAGTGGC
AAAGAATTATGTGATCTTGATTTTAAAAGATGCTTATATAAGTACTGTGACAGCTTTGAA
AAAAGCGCTGCTGGTGAACTGCTGATTAAAGGATGTAAAGCAGCAGCCAAAACATTATTT
ACTGGTACAATGGTACTTGGCTGTAAAAGTTATCTTGATGCACAAGCAAGAGCATGCTAT
TGTCCAAATTCAAGATTTTATCAGCCGCAAATGACACCACCATCAGAGACTCTTAAGATC
AATACATCAACACCCAATGGTAAACAACAAAAGCCGAAATTTGTGTACTCTGTTAATGAA
CCATCAGTAGAAGATTCACCAGAAGAATCAAGCATCACACCACCTGATCTGTCAAAATCA
TCACAATGTTCTTCACTATCAGATGGTGAATCATTTGAATGTTTTGGTGAGAGTGAACAT
ATGACGACAAATATTGATAATAATACTGACACAGTTGTTGATCGTGGTGTTGATATTGAA
CAAGCTCCACAAATACACAACGACATCGAACGTAATTCAATCGCACGACACTCGTGGGCC
AGAACGAGTCTGAGAGGATTACGTGGCAGTATGAAGAGACCTTTGCCGATGTCAAGCAAT
GCTCTAGCTAATCATCTTTATCGTTCTTCATCATTTAATTCATCAGGGAGATCGTCCAAT
TGTGATACAACAGAGGATATGTATAGTGACATTAGTCTCGAAGACGTACAAGATTTGAAT
CATAAACTTGAATTACTTCAGCGACAAGTCACAACGCTTACTGATACACAAATGAATTCT
GAAGACAAACATTCACGTGCCAAAACTGAATACGCAGTACTACAAGCAAAATATACAATA
CTTGAGGATCAATTACGAGAAACAGAGCTAAGATATGAAGAACGATTGATGGAAGAACAG
AAACGATACCGCGAACTGCTCTCACGAACTGAAAGAGAAATTGATTTAAAGAGTGAAAAT
TATCAAATGCGAATTCGAAATCTCGAGTCAGAGCAAGCAGCATTACGTGAAGAAAACAAT
CGACTGAGATCGCAATGTGACAAACAGCATGCAGAAAATCTTGAAACAGCACGCTATAAC
TTGTCAATTGCACAAGAAAATTTAGCCGAAGCAAGAATTCATGAGAAGAGATTGCTTACA
GAAAAAAATCAATCTGAACAATTAATAATTGAATTACATAGAGAAATTGAGAGAATTCGC
AATGAAACTCAAAATGTCATGTCATCAATGCGAAAGTCTAATTTTCAGAACATATCAGCT
TCATCTCTTTCGCTAGAATCAAATGTTTCAGAACCAACCTTTAAAGTTGAAGAACTGCAA
TGTGAAATTGAAAAATTAAAACTTGAAAATAAACAATTAAGAGAAACAAATGAAGAATTA
CAAGCAATGCTATTAAATAAAAACATTGAAGAAGGACGAAGTTTATTAAATGGTGGAACA
TCTATGGCCAATCTAGCTGATGAATTAAAGGAAATGGGTCAAAGTCAGTTGCAAGAAGCA
TACCATGAAAAAGAGGATGAAAACAGAAGACTTAAACGATATATTGATACGATTTTACTT
AATATTGTTGAAACTTATCCACAATTGTTGGAAATTAAAACTGTGGATCGATCATCATCA
TCAAATTGTTGA
>g17573.t2 Gene=g17573 Length=843
MQSVFKVFKPVAFLHLKSCISHQSWFINNHVKTTLFLKPDFTLQRQFSKKTKMAKLTEQE
RAELLEPLLKTGWSMVKGRDAIYKEFMFKNFNEAFGFMSRVALLADKMDHHPEWFNVYNK
VQVTMSTHDCGGLSTRDIKVATFMNDITNVTIFFRGPIEVIILIHNFLLRMRIPYMKILV
YILTFAGYCYSGYGSGMLKSLRDAVLSAEFIFGDFFKNFITLSKKFQSVHEIFDTAVEEN
CVFKCPGNPDIRPKPNKLHVPSSDSCGSLGLKINTDYLPAPEMAKCCDAHDICYETCISG
KELCDLDFKRCLYKYCDSFEKSAAGELLIKGCKAAAKTLFTGTMVLGCKSYLDAQARACY
CPNSRFYQPQMTPPSETLKINTSTPNGKQQKPKFVYSVNEPSVEDSPEESSITPPDLSKS
SQCSSLSDGESFECFGESEHMTTNIDNNTDTVVDRGVDIEQAPQIHNDIERNSIARHSWA
RTSLRGLRGSMKRPLPMSSNALANHLYRSSSFNSSGRSSNCDTTEDMYSDISLEDVQDLN
HKLELLQRQVTTLTDTQMNSEDKHSRAKTEYAVLQAKYTILEDQLRETELRYEERLMEEQ
KRYRELLSRTEREIDLKSENYQMRIRNLESEQAALREENNRLRSQCDKQHAENLETARYN
LSIAQENLAEARIHEKRLLTEKNQSEQLIIELHREIERIRNETQNVMSSMRKSNFQNISA
SSLSLESNVSEPTFKVEELQCEIEKLKLENKQLRETNEELQAMLLNKNIEEGRSLLNGGT
SMANLADELKEMGQSQLQEAYHEKEDENRRLKRYIDTILLNIVETYPQLLEIKTVDRSSS
SNC
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 19 | g17573.t2 | CDD | cd00914 | PCD_DCoH_subfamily_b | 72 | 147 | 2.77411E-48 |
| 14 | g17573.t2 | Coils | Coil | Coil | 536 | 556 | - |
| 11 | g17573.t2 | Coils | Coil | Coil | 571 | 652 | - |
| 13 | g17573.t2 | Coils | Coil | Coil | 682 | 702 | - |
| 15 | g17573.t2 | Coils | Coil | Coil | 736 | 770 | - |
| 12 | g17573.t2 | Coils | Coil | Coil | 794 | 817 | - |
| 10 | g17573.t2 | Gene3D | G3DSA:3.30.1360.20 | - | 49 | 151 | 9.8E-40 |
| 6 | g17573.t2 | Hamap | MF_00434 | Putative pterin-4-alpha-carbinolamine dehydratase. | 53 | 148 | 23.955564 |
| 24 | g17573.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 399 | 422 | - |
| 23 | g17573.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 403 | 422 | - |
| 4 | g17573.t2 | PANTHER | PTHR15726:SF7 | NUCLEAR FALLOUT, ISOFORM J | 405 | 836 | 6.5E-85 |
| 5 | g17573.t2 | PANTHER | PTHR15726 | RAB11-FAMILY INTERACTING PROTEIN | 405 | 836 | 6.5E-85 |
| 1 | g17573.t2 | Pfam | PF01329 | Pterin 4 alpha carbinolamine dehydratase | 55 | 146 | 2.4E-30 |
| 2 | g17573.t2 | Pfam | PF06951 | Group XII secretory phospholipase A2 precursor (PLA2G12) | 190 | 363 | 2.8E-46 |
| 3 | g17573.t2 | Pfam | PF09457 | FIP domain | 795 | 833 | 9.8E-15 |
| 16 | g17573.t2 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 177 | - |
| 18 | g17573.t2 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 178 | 198 | - |
| 17 | g17573.t2 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 199 | 843 | - |
| 22 | g17573.t2 | ProSitePatterns | PS00118 | Phospholipase A2 histidine active site. | 286 | 293 | - |
| 25 | g17573.t2 | ProSiteProfiles | PS51511 | FIP-RBD domain profile. | 771 | 833 | 14.632 |
| 8 | g17573.t2 | SUPERFAMILY | SSF55248 | PCD-like | 53 | 149 | 8.11E-34 |
| 7 | g17573.t2 | SUPERFAMILY | SSF48619 | Phospholipase A2, PLA2 | 256 | 347 | 3.93E-14 |
| 9 | g17573.t2 | SUPERFAMILY | SSF144270 | Eferin C-derminal domain-like | 783 | 833 | 2.62E-13 |
| 21 | g17573.t2 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 147 | 169 | - |
| 20 | g17573.t2 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 178 | 197 | - |
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:0016042 | lipid catabolic process | BP |
| GO:0008124 | 4-alpha-hydroxytetrahydrobiopterin dehydratase activity | MF |
| GO:0006729 | tetrahydrobiopterin biosynthetic process | BP |
| GO:0004623 | phospholipase A2 activity | MF |
| GO:0050482 | arachidonic acid secretion | BP |
| GO:0005509 | calcium ion binding | MF |
| GO:0006644 | phospholipid metabolic process | BP |
| GO:0005576 | extracellular region | CC |
KEGG
Orthology
- This transcript has been annotated with K12485 (Rab11 family-interacting protein 3/4)
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.
