General information for g567.t10
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Cation-independent mannose-6-phosphate receptor.
Parent gene
- The parent gene g567 is located on chr_3: 4170778..4171803 (+ 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 | g567 | g567.t10 | TSS | g567.t10 | 4167939 | 4167939 |
| chr_3 | g567 | g567.t10 | isoform | g567.t10 | 4168915 | 4171803 |
| chr_3 | g567 | g567.t10 | exon | g567.t10.exon1 | 4168915 | 4170520 |
| chr_3 | g567 | g567.t10 | cds | g567.t10.CDS1 | 4168969 | 4170520 |
| chr_3 | g567 | g567.t10 | exon | g567.t10.exon2 | 4170581 | 4170648 |
| chr_3 | g567 | g567.t10 | cds | g567.t10.CDS2 | 4170581 | 4170648 |
| chr_3 | g567 | g567.t10 | exon | g567.t10.exon3 | 4170710 | 4171009 |
| chr_3 | g567 | g567.t10 | cds | g567.t10.CDS3 | 4170710 | 4171009 |
| chr_3 | g567 | g567.t10 | exon | g567.t10.exon4 | 4171103 | 4171217 |
| chr_3 | g567 | g567.t10 | cds | g567.t10.CDS4 | 4171103 | 4171135 |
| chr_3 | g567 | g567.t10 | exon | g567.t10.exon5 | 4171422 | 4171803 |
| chr_3 | g567 | g567.t10 | TTS | g567.t10 | 4171812 | 4171812 |
Sequences
>g567.t10 Gene=g567 Length=2471
AATGATTTTCTTGGCGTGTTTCATGATGATAGCGAATGTGAAGTTACAATACTTATGCGA
ACGCCAAAGGCGTGTTTAGAAATTCCTGAAAATGTCAAAAATGCAAAGATGTACGTAACT
AGTCCCAATGGCAAGATTTTGAATTTCAACGCTTTAAAAAGTTCAAACCATATTATCAAT
GGTCCAAATGATGGAACTTTCATAATTGGTTTTCCAATTACTTACGAACATGGAATTTTA
TGTGAAGCTGGCTCATCTATTTGTTATGTCGACAAGAATGAGACTGATTTATCAAAGAAA
TATACCAATATGGGAACGATGACATCTAATATTGAATTTGAAAATGATCGACCAGTCATT
AAATTTACAAGCAAAGAAAAATGCAATAATAACACATTGGGCTCATCAAAAATTGTTTTC
GAATGTGATCGATTCAAAAAAGAAGGTACACCTAAATTTAAAGGTGTAAAAGATTGTGTA
AGCAATTTTGTTTGGGAAACATCACTTGCATGTTACGATGAAAAACCTTGTGTTGTATCT
GGAGAAAATGGTGATCAATACGATTTTAGTTCACTCGCAAATGTTCAATATGAAGTTAAA
ATTCCAAACAAGACTGATGAAACCATTTACTTTTCTATTTGCTCAAATTCAAAAGAATGT
GGTGAAGGCAACTGGGGTAGTTGCATTGTAAAAAATACAGGTGGCAATAAACAAACAACA
AAAGTAGGCATCTTCAATGCAAAACTTCAAGTCGAGAAGAAAAATGTATTTTTGAAATAT
GATGAAGGTTCTCAATGTGGTGATCCGAAAGATAAGAAAAAATATTCAACAAGAATCGAA
TTTAATGTTGCTGATAGCCCAAATGATGAAGAAATTGTATTAATTGAGGATAAATGTGAA
ATTGTCATTCACTTCAAGACACTCTTGGCTAATCAACATGTAAAGAATTGCGTCGTTAAA
AATTTAGATGATGAAGAAATAGACTTGAGGCCATTAATCGACTATAATGGAAATTATTTG
GCAAGAGTAAATGAAACAACCTTGCCAAATGAAACGTCAAAAAATAATGTGTCCTACTTG
TTGAATGTATGTCGCCCGATAAATTCATTTTATTCATTAAATTGTCATGGAAATACTGGC
GCTTGTAGAACAATCATGAAAGATGAAAAACACGAAGAGGAAATAAGCTTAGGTCACTTT
GAATATTTTATGTCTACTGAAAAGGGAAAAATTGAAGGTACAAACAATGTTATAATGAAA
TATTTCCATGGATCAAAATGTCCAACTGATAAAGAGGAAGAGATAACAACGAAAGTTAAA
TTCTATTGTGATGAGAATGCTGGTTTGGGAAGTCCTATTTTACAATCTATTGAGCATTGT
GAATATTCATTTGAATTTCCAACCAGCATCTTATGCAATGATAAGCGTGTCAATCTGAAA
AGCAATGAATCGTGCATACTGACGAATGGTGATTCGAGTGTCAATTTGAAATCTTATGGA
AATTTCAATACAAGCAACAGAAACATAAGTTTGTGTGATGCACTTGTGAAGACATACACT
ATCAGCTATAAACAATCAATGGTTATTATTGAATATGTTGATAAAGATTACGTCGATATA
GAAGTTCAACTTAAATGTAATTTGAAAAATAATACATTTGTTGATGTTAGCAATGAGGGT
ATCATCATTATGAATGAGTCACCTTTGATTTGTCCACTTTTGCATATCGTACCAAAAGCT
ACACCATCACAGAATGAAGTTGATAACGATAACAATGATGTGCTAGAGATGTCATTAAAC
AATGATATAATAATACCAAAATCAAGCAAATTTCCATTGGGTTATTTGTTCCTAATTTCA
ATTTTGATTGCTGCATTTGGAATTTTCTATATTGTCATAAGAAATCCTGAGCGTCGCGAC
ATAATTCGCAATATGATTAAATTCCGATCTCGGTCAAATGTTCGATACACACGAAACATG
AATGATGACGATTTAATTTTAAACTAGTTATGCCAATATAGTTTTCTTTCCATTACACTT
GTTATCATCCTAAAACAAAACAAAATAGTTCCTGTAGAAAAATCACTATGTGCGACTTAA
TGAAGAATCAGCCCTCTTAGATGGTAATAGTCCAAATTCAGATAGTGATGATGAGAATAT
TTTGCTGTAAATACCTTGAGAGGAAGCCAAATTTTTTGATAGTATGTAAAAGTGTTATTT
TTGTTACTTCATATTGAAATAATGTGATTTATGAAAGTAATCAACTATACTTTCTGCTGG
TTCTAAGTCATGTATCACTAATATATTAAAGTATTTAATTTATATTGTTATTTTTGCTGG
CTGAAAGACACAACATGAACATGAAACAGGCTGATAACAGTAAATAGTGTTTTAAATAAT
TGTATTTTTCTATCACCTCATTCAATACAATCCAAAAAAGTTGTTGAATTAAATAAAATT
GAGTGATTTTT
>g567.t10 Gene=g567 Length=650
MRTPKACLEIPENVKNAKMYVTSPNGKILNFNALKSSNHIINGPNDGTFIIGFPITYEHG
ILCEAGSSICYVDKNETDLSKKYTNMGTMTSNIEFENDRPVIKFTSKEKCNNNTLGSSKI
VFECDRFKKEGTPKFKGVKDCVSNFVWETSLACYDEKPCVVSGENGDQYDFSSLANVQYE
VKIPNKTDETIYFSICSNSKECGEGNWGSCIVKNTGGNKQTTKVGIFNAKLQVEKKNVFL
KYDEGSQCGDPKDKKKYSTRIEFNVADSPNDEEIVLIEDKCEIVIHFKTLLANQHVKNCV
VKNLDDEEIDLRPLIDYNGNYLARVNETTLPNETSKNNVSYLLNVCRPINSFYSLNCHGN
TGACRTIMKDEKHEEEISLGHFEYFMSTEKGKIEGTNNVIMKYFHGSKCPTDKEEEITTK
VKFYCDENAGLGSPILQSIEHCEYSFEFPTSILCNDKRVNLKSNESCILTNGDSSVNLKS
YGNFNTSNRNISLCDALVKTYTISYKQSMVIIEYVDKDYVDIEVQLKCNLKNNTFVDVSN
EGIIIMNESPLICPLLHIVPKATPSQNEVDNDNNDVLEMSLNNDIIIPKSSKFPLGYLFL
ISILIAAFGIFYIVIRNPERRDIIRNMIKFRSRSNVRYTRNMNDDDLILN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 17 | g567.t10 | Gene3D | G3DSA:2.70.130.10 | - | 19 | 156 | 2.1E-18 |
| 15 | g567.t10 | Gene3D | G3DSA:2.70.130.10 | - | 157 | 296 | 5.5E-20 |
| 16 | g567.t10 | Gene3D | G3DSA:2.70.130.10 | - | 297 | 458 | 8.1E-29 |
| 3 | g567.t10 | PANTHER | PTHR15071 | MANNOSE-6-PHOSPHATE RECEPTOR FAMILY MEMBER | 63 | 177 | 6.9E-53 |
| 6 | g567.t10 | PANTHER | PTHR15071:SF17 | CATION-INDEPENDENT MANNOSE-6-PHOSPHATE RECEPTOR | 63 | 177 | 6.9E-53 |
| 5 | g567.t10 | PANTHER | PTHR15071 | MANNOSE-6-PHOSPHATE RECEPTOR FAMILY MEMBER | 72 | 264 | 6.9E-53 |
| 8 | g567.t10 | PANTHER | PTHR15071:SF17 | CATION-INDEPENDENT MANNOSE-6-PHOSPHATE RECEPTOR | 72 | 264 | 6.9E-53 |
| 4 | g567.t10 | PANTHER | PTHR15071 | MANNOSE-6-PHOSPHATE RECEPTOR FAMILY MEMBER | 184 | 472 | 6.9E-53 |
| 7 | g567.t10 | PANTHER | PTHR15071:SF17 | CATION-INDEPENDENT MANNOSE-6-PHOSPHATE RECEPTOR | 184 | 472 | 6.9E-53 |
| 1 | g567.t10 | Pfam | PF00878 | Cation-independent mannose-6-phosphate receptor repeat | 118 | 249 | 1.8E-17 |
| 2 | g567.t10 | Pfam | PF00878 | Cation-independent mannose-6-phosphate receptor repeat | 256 | 409 | 4.4E-10 |
| 19 | g567.t10 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 594 | - |
| 20 | g567.t10 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 595 | 615 | - |
| 18 | g567.t10 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 616 | 650 | - |
| 13 | g567.t10 | SMART | SM01404 | CIMR_2 | 113 | 249 | 8.3E-24 |
| 14 | g567.t10 | SMART | SM01404 | CIMR_2 | 254 | 410 | 1.1E-14 |
| 10 | g567.t10 | SUPERFAMILY | SSF50911 | Mannose 6-phosphate receptor domain | 18 | 153 | 7.33E-17 |
| 11 | g567.t10 | SUPERFAMILY | SSF50911 | Mannose 6-phosphate receptor domain | 158 | 291 | 1.02E-14 |
| 12 | g567.t10 | SUPERFAMILY | SSF50911 | Mannose 6-phosphate receptor domain | 280 | 454 | 3.66E-23 |
| 9 | g567.t10 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 593 | 615 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g567/g567.t10; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g567.t10.fa.iupred3.txt does not exist
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0038023 | signaling receptor activity | MF |
| GO:0007041 | lysosomal transport | BP |
| GO:0005537 | mannose binding | MF |
KEGG
Orthology
This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).
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.
