General information for g7744.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Phosphatidate cytidylyltransferase, photoreceptor-specific.
Parent gene
- The parent gene g7744 is located on chr_2: 25636767..25639553 (+ 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 | g7744 | g7744.t1 | TSS | g7744.t1 | 25636665 | 25636665 |
| chr_2 | g7744 | g7744.t1 | isoform | g7744.t1 | 25636767 | 25639553 |
| chr_2 | g7744 | g7744.t1 | exon | g7744.t1.exon1 | 25636767 | 25636958 |
| chr_2 | g7744 | g7744.t1 | cds | g7744.t1.CDS1 | 25636767 | 25636958 |
| chr_2 | g7744 | g7744.t1 | exon | g7744.t1.exon2 | 25637778 | 25637902 |
| chr_2 | g7744 | g7744.t1 | cds | g7744.t1.CDS2 | 25637778 | 25637902 |
| chr_2 | g7744 | g7744.t1 | exon | g7744.t1.exon3 | 25638078 | 25638174 |
| chr_2 | g7744 | g7744.t1 | cds | g7744.t1.CDS3 | 25638078 | 25638174 |
| chr_2 | g7744 | g7744.t1 | exon | g7744.t1.exon4 | 25638236 | 25638605 |
| chr_2 | g7744 | g7744.t1 | cds | g7744.t1.CDS4 | 25638236 | 25638605 |
| chr_2 | g7744 | g7744.t1 | exon | g7744.t1.exon5 | 25638691 | 25638986 |
| chr_2 | g7744 | g7744.t1 | cds | g7744.t1.CDS5 | 25638691 | 25638986 |
| chr_2 | g7744 | g7744.t1 | exon | g7744.t1.exon6 | 25639051 | 25639182 |
| chr_2 | g7744 | g7744.t1 | cds | g7744.t1.CDS6 | 25639051 | 25639182 |
| chr_2 | g7744 | g7744.t1 | exon | g7744.t1.exon7 | 25639276 | 25639410 |
| chr_2 | g7744 | g7744.t1 | cds | g7744.t1.CDS7 | 25639276 | 25639410 |
| chr_2 | g7744 | g7744.t1 | exon | g7744.t1.exon8 | 25639464 | 25639553 |
| chr_2 | g7744 | g7744.t1 | cds | g7744.t1.CDS8 | 25639464 | 25639553 |
| chr_2 | g7744 | g7744.t1 | TTS | g7744.t1 | NA | NA |
Sequences
>g7744.t1 Gene=g7744 Length=1437
ATGAGTGACTCAAGTGATAAATTAAGCGAACAAGAACAAGAATTAAGACGAAGAAATATT
AATAATCTTGGTTCTGGAGATTTACAAATAAATTCTGCCTCAATTAATAATGATAAAAAT
ATTAACACACCAAATGCATACGATTCTGACAAAGAAAATCTAATAGATAACGAAACCGTC
GACTCGGATCATATCGATTCAGAGGAAGAAAAGTTACCAGAAGAGAAATATGTTGATGAA
TTGGCAAAAAAATTACCACAAGGCACTGACAAAACGCCTGAAGTTCTTGACTCTGCGTTG
AAAGGCCTACCAGACAGATGGAAGAATTGGGTTATTAGAGGTATCTTTACATTCATCATG
ATCTCAGGTTTTTGTATGATGATTGCTGGTGGCCCTCTAGCATTGATGATTACAACTCTT
GCTGTTCAAGTCAAATGTTTTCAAGAAATAATTTCAATTGGCTATCAAGTATACCGTATT
CATGGACTGCCATGGTTCAGAAGTCTCTCTTGGTATTTTCTAGTTACATCAAATTATTTC
TTCTATGGAGAGAATCTCTTTGATTATCTTGGCGTACTCTTCAGTCGTGTTGAATCTTTA
CGTTTTCTTATTACTTATCATCGTTTTATTTCTTTCTGCCTCTACTGTATTGGTTTCGTT
TGGTTTGTATTATCACTGGTCAAAAAGTATTACATGAAACAATTCAGTTTGTTTGCCTGG
ACACATGTTGCGCTTTTGATTGTTGTCACACAAAGCTATTTAATCATTCAAAATATTTTT
GAAGGAATGATTTGGTTCATTGTGCCAGTAATGATGATTGTATGCAATGACGTTATGGCA
TACATGTTTGGATTCTTCTTTGGCAAAACGCCATTGATCAAATTAAGTCCAAAGAAAACT
TGGGAGGGTTTCATTGGAGGTGGTTTTGCGACAGTTATATTTGGTGTTGTCTTCTCATAC
TTCCTATGTCGATATCAATACTTTGTTTGTCCAATTGAGTATTCAGAAACAGCTGGCAAA
ATTGTATTAGATTGTGAGCCAAGTTATTTATTCAGACCTCAGGAATATGGAATTCGTATT
GGAAAAACTGAAACTGTCTTTACAATGTATCCATTTTTGTTACATTCCTTGTCATTGAGT
ATCTTCAGCTCAGTAATTGGACCTTTTGGAGGATTCTTTGCATCTGGATTTAAACGTGCA
TTTAAAATTAAGGATTTCGGAGCAATGATCCCGGGACATGGTGGCATTATGGATCGTTTT
GATTGTCAATTTTTGATGGCTACATTTGTCAATGTCTACATTTCTAGCTTTATTCGTACG
GCTTCGCCACAAAAATTATTGGCACAAGTTTACAATTTAAAACCAGAACAGCAGCTTCAA
TTGTTCCACTCTCTAAAGGAAAATTTACAAAACAGAAATATCTTGGAGCTTAGTTAA
>g7744.t1 Gene=g7744 Length=478
MSDSSDKLSEQEQELRRRNINNLGSGDLQINSASINNDKNINTPNAYDSDKENLIDNETV
DSDHIDSEEEKLPEEKYVDELAKKLPQGTDKTPEVLDSALKGLPDRWKNWVIRGIFTFIM
ISGFCMMIAGGPLALMITTLAVQVKCFQEIISIGYQVYRIHGLPWFRSLSWYFLVTSNYF
FYGENLFDYLGVLFSRVESLRFLITYHRFISFCLYCIGFVWFVLSLVKKYYMKQFSLFAW
THVALLIVVTQSYLIIQNIFEGMIWFIVPVMMIVCNDVMAYMFGFFFGKTPLIKLSPKKT
WEGFIGGGFATVIFGVVFSYFLCRYQYFVCPIEYSETAGKIVLDCEPSYLFRPQEYGIRI
GKTETVFTMYPFLLHSLSLSIFSSVIGPFGGFFASGFKRAFKIKDFGAMIPGHGGIMDRF
DCQFLMATFVNVYISSFIRTASPQKLLAQVYNLKPEQQLQLFHSLKENLQNRNILELS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g7744.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 52 | - |
| 14 | g7744.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 17 | - |
| 13 | g7744.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 18 | 50 | - |
| 2 | g7744.t1 | PANTHER | PTHR13773:SF16 | PHOSPHATIDATE CYTIDYLYLTRANSFERASE 1 | 48 | 476 | 4.0E-182 |
| 3 | g7744.t1 | PANTHER | PTHR13773 | PHOSPHATIDATE CYTIDYLYLTRANSFERASE | 48 | 476 | 4.0E-182 |
| 32 | g7744.t1 | PIRSF | PIRSF018269 | CDP-DAG_synth_e | 48 | 477 | 1.1E-177 |
| 1 | g7744.t1 | Pfam | PF01148 | Cytidylyltransferase family | 112 | 437 | 1.5E-85 |
| 19 | g7744.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 109 | - |
| 24 | g7744.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 110 | 129 | - |
| 22 | g7744.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 130 | 134 | - |
| 28 | g7744.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 135 | 158 | - |
| 15 | g7744.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 159 | 164 | - |
| 26 | g7744.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 165 | 182 | - |
| 20 | g7744.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 183 | 201 | - |
| 27 | g7744.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 202 | 224 | - |
| 16 | g7744.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 225 | 235 | - |
| 30 | g7744.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 236 | 256 | - |
| 21 | g7744.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 257 | 261 | - |
| 29 | g7744.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 262 | 288 | - |
| 18 | g7744.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 289 | 299 | - |
| 25 | g7744.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 300 | 322 | - |
| 23 | g7744.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 323 | 371 | - |
| 31 | g7744.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 372 | 394 | - |
| 17 | g7744.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 395 | 478 | - |
| 11 | g7744.t1 | ProSitePatterns | PS01315 | Phosphatidate cytidylyltransferase signature. | 395 | 421 | - |
| 5 | g7744.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 115 | 137 | - |
| 4 | g7744.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 171 | 193 | - |
| 7 | g7744.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 205 | 227 | - |
| 9 | g7744.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 237 | 256 | - |
| 8 | g7744.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 263 | 285 | - |
| 6 | g7744.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 300 | 322 | - |
| 10 | g7744.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 372 | 394 | - |
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:0004605 | phosphatidate cytidylyltransferase activity | MF |
| GO:0016772 | transferase activity, transferring phosphorus-containing groups | MF |
KEGG
Orthology
- This transcript has been annotated with K00981 (phosphatidate cytidylyltransferase)
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.
