General information for g12545.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Frizzled-2.
Parent gene
- The parent gene g12545 is located on chr_1: 24352698..24353939 (+ 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 | g12545 | g12545.t1 | isoform | g12545.t1 | 24351086 | 24353563 |
| chr_1 | g12545 | g12545.t1 | exon | g12545.t1.exon1 | 24351086 | 24351284 |
| chr_1 | g12545 | g12545.t1 | cds | g12545.t1.CDS1 | 24351086 | 24351284 |
| chr_1 | g12545 | g12545.t1 | exon | g12545.t1.exon2 | 24351353 | 24351961 |
| chr_1 | g12545 | g12545.t1 | cds | g12545.t1.CDS2 | 24351353 | 24351961 |
| chr_1 | g12545 | g12545.t1 | exon | g12545.t1.exon3 | 24352328 | 24353481 |
| chr_1 | g12545 | g12545.t1 | cds | g12545.t1.CDS3 | 24352328 | 24353481 |
| chr_1 | g12545 | g12545.t1 | exon | g12545.t1.exon4 | 24353558 | 24353563 |
| chr_1 | g12545 | g12545.t1 | cds | g12545.t1.CDS4 | 24353558 | 24353563 |
| chr_1 | g12545 | g12545.t1 | TTS | g12545.t1 | 24354086 | 24354086 |
| chr_1 | g12545 | g12545.t1 | TSS | g12545.t1 | NA | NA |
Sequences
>g12545.t1 Gene=g12545 Length=1968
ATGAGCCGGAATCGATCGCGACTGTTTAATTCTGTGATGCTGCTTGCCGCATTTCTCATG
CTGGCATCTGCAGATAAAGGATATTATGGTAATAGCGGAAGCATGAACGATGCTGGCGAT
ATGGAAGTTCATATTTCAATGCAATCACAAAAGTCTGGTCATCCACGTTGTGAAGAGATC
AATATTCCCATGTGTAGAGGTATTGGTTATAATACGACAAAATTTCCAAATCAACTCAAC
CATGAAACACAAGAAGAAGCTGGCCTTGAAGTTCATCAGTTCTGGCCACTTGTTGAAATA
AAGTGTTCACCAGATTTAAAGTTTTTCTTATGCTCCATGTATACACCAATTTGCATTGAA
GATTATATGCAGCCACTGCCAGTTTGTCGTTCTGTTTGTGAACGTGCACGTGAAGGTTGT
GAACCAATTATGGAGCAATACAATTTCAAGTGGCCAGAGACAATGAATTGCGATAGTTTG
CCGGTGCATGGTGATAAAGATGTACTATGCATGGAGATACCAAGCTATCAGAATAATGAC
CAGTCATCGTCATCATCGAGTGACACGGGCAGTAATAATGTAAATAACAATAATAACAAT
AAAAAGAAGCATCAGGGCAGCTCATCAACGACACAGAAAAAGTGTCCAAAAGGCGATAAA
AAGTGTCAACAGGCATTGGAGCAACGTAATAAAGATTGTCAATGTAAATGTCGTTCGCCA
CTCGTTCCACTTGGAAAGGAAAGCATGTGGTACAATACGAGTACAGCAAAAGTTGGCAGT
GTAAGCAATTGTGGAATTCCATGCAAAGGCGCATTCTTTACACAAGATGAGAAAGACTTT
GCAAGCTTCTGGATAACTTTATGGAGTGGTTTTTGTGCAGCGAGCACTTTTATGACACTT
ACAACTTTTTTAATTGATCCCGAGCGTTTCAAGTATCCGGAAAGGCCAATTGTATTTCTA
TCAGCGTGCTACTTTATGGTGTCATTAGGATTCTTAACACGATACTTTGTTGGCCATGAA
AAAATTGCGTGCGATGGTCGCGCTATAAAATACTCATCAACGGGTCAGAGCTCGTGCACA
ATTGTCTTTTTATTGATTTACTACTTTGGCATGGCATCTTCAATTTGGTGGGTCATTTTG
AGCTTCACTTGGTTCCTCTCGGCTGGTTTGAAATGGGGCAATGAAGCAATAAGCAAAATT
TCACATTTCTTCCATCTTGCTGCATGGCTCATTCCAACATTACAAAGCATTTCAGTGCTC
GTTCATCCTGCAGTTGATGGTGATCCTCTTGCTGGAATTTGCTATGTTGGAAATACATCA
ATTGAGCATTTAAGAAATTTTGTGCTTGCTCCATACTTTGTATATCTCGTCATCGGCACA
ACATTCTTACTCGCTGGATTTGTTTCACTCTTCCGCATCAGATCAGTTATTAAACAGCAA
GGTGGAATTGGTGCTGGTTCAAAAGCAGATAAACTTGAAAAATTAATGATAAGAATTGGA
ATCTTTAGTGTTCTATATACAGTACCAGCGACAATTGTTATTGCATGTCATCTTTATGAG
TCAAACTTTTTCGATGACTGGATGACGACGCTCGTTTGTCCTTGCGTACAACAAACAGAT
GAATGGCGACGACAGCCAATTTACGCAATTCTTATGCTAAAATATTTCATGACTCTTGTA
TGTGGAATAACTTCTGGCATTTGGATATGGAGTGGAAAAACTCTCGAGTCATGGTGTAAA
TTATGGCGAAGACTTTGCGGCTCAAAGCCTGATCATTCGGGCGCTGGTCAAGTTTTAATC
AAACCGCGACCACAACTACCTCAACCATATGTAGCGACAACAGTACAGGGATCAGCGGCA
TCAGCGTCATTATTGACAGCACCATATGCACAAACGATGGGAAGCATGGCATCAAGTCAC
CATCATTTACATCATCATGTGCTGAAACATCCGATGAGTCATGTATGA
>g12545.t1 Gene=g12545 Length=655
MSRNRSRLFNSVMLLAAFLMLASADKGYYGNSGSMNDAGDMEVHISMQSQKSGHPRCEEI
NIPMCRGIGYNTTKFPNQLNHETQEEAGLEVHQFWPLVEIKCSPDLKFFLCSMYTPICIE
DYMQPLPVCRSVCERAREGCEPIMEQYNFKWPETMNCDSLPVHGDKDVLCMEIPSYQNND
QSSSSSSDTGSNNVNNNNNNKKKHQGSSSTTQKKCPKGDKKCQQALEQRNKDCQCKCRSP
LVPLGKESMWYNTSTAKVGSVSNCGIPCKGAFFTQDEKDFASFWITLWSGFCAASTFMTL
TTFLIDPERFKYPERPIVFLSACYFMVSLGFLTRYFVGHEKIACDGRAIKYSSTGQSSCT
IVFLLIYYFGMASSIWWVILSFTWFLSAGLKWGNEAISKISHFFHLAAWLIPTLQSISVL
VHPAVDGDPLAGICYVGNTSIEHLRNFVLAPYFVYLVIGTTFLLAGFVSLFRIRSVIKQQ
GGIGAGSKADKLEKLMIRIGIFSVLYTVPATIVIACHLYESNFFDDWMTTLVCPCVQQTD
EWRRQPIYAILMLKYFMTLVCGITSGIWIWSGKTLESWCKLWRRLCGSKPDHSGAGQVLI
KPRPQLPQPYVATTVQGSAASASLLTAPYAQTMGSMASSHHHLHHHVLKHPMSHV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 37 | g12545.t1 | CDD | cd07456 | CRD_FZ5_like | 56 | 175 | 2.22738E-81 |
| 36 | g12545.t1 | CDD | cd15035 | 7tmF_FZD5_FZD8-like | 271 | 583 | 0.0 |
| 16 | g12545.t1 | Gene3D | G3DSA:1.10.2000.10 | - | 49 | 175 | 8.7E-46 |
| 15 | g12545.t1 | Gene3D | G3DSA:1.20.1070.10 | - | 234 | 588 | 3.3E-133 |
| 47 | g12545.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 178 | 212 | - |
| 3 | g12545.t1 | PANTHER | PTHR11309:SF126 | FRIZZLED-2 | 47 | 607 | 2.7E-248 |
| 4 | g12545.t1 | PANTHER | PTHR11309 | FRIZZLED | 47 | 607 | 2.7E-248 |
| 11 | g12545.t1 | PRINTS | PR00489 | Frizzled protein signature | 284 | 306 | 1.0E-80 |
| 5 | g12545.t1 | PRINTS | PR00489 | Frizzled protein signature | 312 | 334 | 1.0E-80 |
| 10 | g12545.t1 | PRINTS | PR00489 | Frizzled protein signature | 361 | 385 | 1.0E-80 |
| 6 | g12545.t1 | PRINTS | PR00489 | Frizzled protein signature | 404 | 427 | 1.0E-80 |
| 9 | g12545.t1 | PRINTS | PR00489 | Frizzled protein signature | 449 | 471 | 1.0E-80 |
| 8 | g12545.t1 | PRINTS | PR00489 | Frizzled protein signature | 495 | 516 | 1.0E-80 |
| 7 | g12545.t1 | PRINTS | PR00489 | Frizzled protein signature | 550 | 570 | 1.0E-80 |
| 2 | g12545.t1 | Pfam | PF01392 | Fz domain | 57 | 162 | 8.3E-32 |
| 1 | g12545.t1 | Pfam | PF01534 | Frizzled/Smoothened family membrane region | 272 | 584 | 2.0E-131 |
| 25 | g12545.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 24 | - |
| 26 | g12545.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 7 | - |
| 27 | g12545.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 8 | 19 | - |
| 35 | g12545.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 20 | 24 | - |
| 21 | g12545.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 25 | 282 | - |
| 31 | g12545.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 283 | 305 | - |
| 19 | g12545.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 306 | 316 | - |
| 33 | g12545.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 317 | 337 | - |
| 23 | g12545.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 338 | 360 | - |
| 30 | g12545.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 361 | 390 | - |
| 20 | g12545.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 391 | 401 | - |
| 29 | g12545.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 402 | 421 | - |
| 22 | g12545.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 422 | 451 | - |
| 28 | g12545.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 452 | 474 | - |
| 18 | g12545.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 475 | 494 | - |
| 34 | g12545.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 495 | 520 | - |
| 24 | g12545.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 521 | 546 | - |
| 32 | g12545.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 547 | 570 | - |
| 17 | g12545.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 571 | 655 | - |
| 49 | g12545.t1 | ProSiteProfiles | PS50038 | Frizzled (fz) domain profile. | 52 | 173 | 29.358 |
| 48 | g12545.t1 | ProSiteProfiles | PS50261 | G-protein coupled receptors family 2 profile 2. | 281 | 577 | 34.542 |
| 45 | g12545.t1 | SMART | SM00063 | FRI_4 | 56 | 175 | 4.6E-69 |
| 46 | g12545.t1 | SMART | SM01330 | Frizzled_2 | 271 | 588 | 8.0E-196 |
| 12 | g12545.t1 | SUPERFAMILY | SSF63501 | Frizzled cysteine-rich domain | 56 | 175 | 1.15E-42 |
| 14 | g12545.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 24 | - |
| 38 | g12545.t1 | SignalP_GRAM_NEGATIVE | SignalP-noTM | SignalP-noTM | 1 | 24 | - |
| 13 | g12545.t1 | SignalP_GRAM_POSITIVE | SignalP-TM | SignalP-TM | 1 | 24 | - |
| 41 | g12545.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 283 | 305 | - |
| 43 | g12545.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 315 | 337 | - |
| 40 | g12545.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 358 | 380 | - |
| 44 | g12545.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 449 | 471 | - |
| 42 | g12545.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 497 | 519 | - |
| 39 | g12545.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 548 | 570 | - |
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 K02375 (frizzled 5/8)
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.
