General information for g12986.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Frizzled-3.
Parent gene
- The parent gene g12986 is located on chr_1: 27357185..27375783 (+ 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_1 | g12986 | g12986.t1 | TSS | g12986.t1 | 27356479 | 27356479 |
| chr_1 | g12986 | g12986.t1 | isoform | g12986.t1 | 27357185 | 27375783 |
| chr_1 | g12986 | g12986.t1 | exon | g12986.t1.exon1 | 27357185 | 27357418 |
| chr_1 | g12986 | g12986.t1 | cds | g12986.t1.CDS1 | 27357185 | 27357418 |
| chr_1 | g12986 | g12986.t1 | exon | g12986.t1.exon2 | 27374064 | 27374315 |
| chr_1 | g12986 | g12986.t1 | cds | g12986.t1.CDS2 | 27374064 | 27374315 |
| chr_1 | g12986 | g12986.t1 | exon | g12986.t1.exon3 | 27374404 | 27375783 |
| chr_1 | g12986 | g12986.t1 | cds | g12986.t1.CDS3 | 27374404 | 27375783 |
| chr_1 | g12986 | g12986.t1 | TTS | g12986.t1 | 27375999 | 27375999 |
Sequences
>g12986.t1 Gene=g12986 Length=1866
ATGCCTGCTTGTAGTGTTACAAAAATGTTATCGATAGAATTTTTAATGTTACTGATATTA
TTGCTAGTAATAAAGACAATTAATGCATCGACATTGCCAATTGATGAAAGTGGTCAAAAT
AAATGTGAGCAGATAAAAATCACAAATTGTCCTGAATTGAAGTACAATCATACAATCATA
ACAACGGCAATTGATGATAATCATCGCATGGATATGAATGATGCCAATGAGTTGCTCAAT
AAATTGACACCGATTTTTGAGATGACAAGTAACAGTCAATGCTCTCGACAGATGAGATTT
CTCATTTGCTCAAAGCTGTTTCCATTCTGTTCAGAAGATGTTTCACAGCCAGTGCAAGCA
TGCCGTAATGTATGTGAAAAGGTGAAAAGTGATTGTGCCAATGATCCAATAGTAAAACAA
TTCTGGCCAGCATTTCTCAAATGTGAAGAAATGCCGCAAAATGAAAAGAGAGATTTGTGT
TTGAATATGCCAAATGAATTGACAACTGAAGAACCAATAATTAATACATCAGAAGCAGCA
ACGACTGAAATTTCAGATGATGACGAAGATGATGAAGACGATCAAAAATTTCAAATAAAT
CAACCACAAGAGAAAACTTTTTGGAAATTACTGACACAAACACAAAGACGAAGTCAAGTT
TCAACACTTTCGACATGTCCACAAAATTTTACATTAAATGAACGAGGAAATTGTATCTAT
AAATGTGGCACTGATGCTTTCTACACAATGCATCAAAAGAAAATCGTCGAGACTTGTATT
CTCGTATTTTCCGTACTCTGTTTCATCTTTACTCTCTTTTCGCTCATCACATTCTGGACA
GAATCGACACGTTTCAAGTTTCCAGAGCGACCAGTTTTGTTCCTCACATTATGCTACAAC
CTGCTTAGCATTTGTTATTTGCTCAAAATTTTCTATCAAAAATCAACAAACGTTCCTGAA
AACATTGATGAAATTCATGATTTCAATGGTGGCATTTCATCGATAAAAACGACAGATGGT
GTTAATCAGTGCTCAATTAATTCACAATGCCTCGCGTACTTTATTATTATTAATTATCTC
ATTATTAGCGCATCATTTTGGTGGCTTATATTTGGTCTCTCATGGTGGCTAAGTACTGCA
AAGCAATGGAGTCCTGAAGCACTTGAAAGAAAATCTGGACTATTTCATGTTCTTGCATGG
CTTTTGCCACTTGCATCACCTATTGCTGCACTTCTATTTGGCGCAATAAAAGTCAATGAA
CTTACTGGCATGTGCTCATCTGTTGGATTCACTGAAATTCCTGCACTTGTTCTTCTTGTA
TTTGGCGCAATTTTCATCATTCTCTCAGCAAGGTCATTACGATCACTGAGGACATCATGG
AAAAATAGCAAATTATCACAAGTAATGAGTCGAATTTTAATGTTTGGAGTTATTTTTGTA
GCACCAGCAATTACTGCAATTGTACTTATGTTTCTTGATTATGACAAAGAACTACCTCCA
TGTTTACCTGGTGAATGCTATTCGCCTGAAAAGCGAACGATAAACATAACAATCATTCGA
TATGCTTGTCTATTGTTGGGCGGAATTAGTGGAATATGGGTATGGTCAAAGAAAACATGC
ATTTCCTGTCGAAAAAAGATAACGACAGTCCAATACTCAAGTCCCTCACCACACACAACA
ATCGAGAATTTAAATGGTGTAGCAAATAAGTATAATACTTACAAATATGTGAATTCACTA
CATAAAAGTCTCCTAAATAATAATTATCATCAGCATCATTATCAACATAAAAAATTCATT
AGTGGTGTTCATCGAACGCATCATCATCATCATATTGATTATATTCCGCCACAGAATCGC
ATCTAA
>g12986.t1 Gene=g12986 Length=621
MPACSVTKMLSIEFLMLLILLLVIKTINASTLPIDESGQNKCEQIKITNCPELKYNHTII
TTAIDDNHRMDMNDANELLNKLTPIFEMTSNSQCSRQMRFLICSKLFPFCSEDVSQPVQA
CRNVCEKVKSDCANDPIVKQFWPAFLKCEEMPQNEKRDLCLNMPNELTTEEPIINTSEAA
TTEISDDDEDDEDDQKFQINQPQEKTFWKLLTQTQRRSQVSTLSTCPQNFTLNERGNCIY
KCGTDAFYTMHQKKIVETCILVFSVLCFIFTLFSLITFWTESTRFKFPERPVLFLTLCYN
LLSICYLLKIFYQKSTNVPENIDEIHDFNGGISSIKTTDGVNQCSINSQCLAYFIIINYL
IISASFWWLIFGLSWWLSTAKQWSPEALERKSGLFHVLAWLLPLASPIAALLFGAIKVNE
LTGMCSSVGFTEIPALVLLVFGAIFIILSARSLRSLRTSWKNSKLSQVMSRILMFGVIFV
APAITAIVLMFLDYDKELPPCLPGECYSPEKRTINITIIRYACLLLGGISGIWVWSKKTC
ISCRKKITTVQYSSPSPHTTIENLNGVANKYNTYKYVNSLHKSLLNNNYHQHHYQHKKFI
SGVHRTHHHHHIDYIPPQNRI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 34 | g12986.t1 | CDD | cd15031 | 7tmF_FZD3_insect | 246 | 545 | 1.45797E-96 |
| 14 | g12986.t1 | Gene3D | G3DSA:1.10.2000.10 | - | 36 | 168 | 1.8E-23 |
| 13 | g12986.t1 | Gene3D | G3DSA:1.20.1070.10 | - | 213 | 551 | 1.4E-66 |
| 44 | g12986.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 172 | 195 | - |
| 3 | g12986.t1 | PANTHER | PTHR11309 | FRIZZLED | 40 | 591 | 5.1E-102 |
| 4 | g12986.t1 | PANTHER | PTHR11309:SF99 | FRIZZLED-3 | 40 | 591 | 5.1E-102 |
| 7 | g12986.t1 | PRINTS | PR00489 | Frizzled protein signature | 259 | 281 | 5.3E-24 |
| 5 | g12986.t1 | PRINTS | PR00489 | Frizzled protein signature | 287 | 309 | 5.3E-24 |
| 6 | g12986.t1 | PRINTS | PR00489 | Frizzled protein signature | 352 | 376 | 5.3E-24 |
| 8 | g12986.t1 | PRINTS | PR00489 | Frizzled protein signature | 395 | 418 | 5.3E-24 |
| 9 | g12986.t1 | PRINTS | PR00489 | Frizzled protein signature | 515 | 535 | 5.3E-24 |
| 2 | g12986.t1 | Pfam | PF01392 | Fz domain | 42 | 155 | 3.5E-17 |
| 1 | g12986.t1 | Pfam | PF01534 | Frizzled/Smoothened family membrane region | 247 | 546 | 6.4E-64 |
| 23 | g12986.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 29 | - |
| 24 | g12986.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 13 | - |
| 25 | g12986.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 14 | 24 | - |
| 33 | g12986.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 25 | 29 | - |
| 20 | g12986.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 30 | 259 | - |
| 30 | g12986.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 260 | 280 | - |
| 16 | g12986.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 281 | 291 | - |
| 29 | g12986.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 292 | 312 | - |
| 19 | g12986.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 313 | 350 | - |
| 26 | g12986.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 351 | 377 | - |
| 15 | g12986.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 378 | 396 | - |
| 32 | g12986.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 397 | 416 | - |
| 21 | g12986.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 417 | 427 | - |
| 28 | g12986.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 428 | 451 | - |
| 17 | g12986.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 452 | 471 | - |
| 27 | g12986.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 472 | 492 | - |
| 22 | g12986.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 493 | 517 | - |
| 31 | g12986.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 518 | 536 | - |
| 18 | g12986.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 537 | 621 | - |
| 46 | g12986.t1 | ProSiteProfiles | PS50038 | Frizzled (fz) domain profile. | 37 | 163 | 18.417 |
| 45 | g12986.t1 | ProSiteProfiles | PS50261 | G-protein coupled receptors family 2 profile 2. | 253 | 542 | 21.211 |
| 42 | g12986.t1 | SMART | SM00063 | FRI_4 | 41 | 165 | 3.7E-14 |
| 43 | g12986.t1 | SMART | SM01330 | Frizzled_2 | 246 | 549 | 8.1E-72 |
| 10 | g12986.t1 | SUPERFAMILY | SSF63501 | Frizzled cysteine-rich domain | 40 | 161 | 4.19E-19 |
| 12 | g12986.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 29 | - |
| 11 | g12986.t1 | SignalP_GRAM_POSITIVE | SignalP-TM | SignalP-TM | 1 | 29 | - |
| 41 | g12986.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 10 | 32 | - |
| 38 | g12986.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 258 | 280 | - |
| 37 | g12986.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 351 | 373 | - |
| 40 | g12986.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 394 | 416 | - |
| 36 | g12986.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 431 | 453 | - |
| 39 | g12986.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 472 | 494 | - |
| 35 | g12986.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 514 | 536 | - |
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:0005515 | protein binding | MF |
| GO:0016021 | integral component of membrane | CC |
| GO:0004888 | transmembrane signaling receptor activity | MF |
| GO:0007166 | cell surface receptor signaling pathway | BP |
KEGG
Orthology
- This transcript has been annotated with K04690 (frizzled)
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.
