General information for g9256.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Cytokine receptor.
Parent gene
- The parent gene g9256 is located on chr_1: 1331164..1332169 (- 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 | g9256 | g9256.t1 | TTS | g9256.t1 | 1327687 | 1327687 |
| chr_1 | g9256 | g9256.t1 | isoform | g9256.t1 | 1328324 | 1332169 |
| chr_1 | g9256 | g9256.t1 | exon | g9256.t1.exon1 | 1328324 | 1328373 |
| chr_1 | g9256 | g9256.t1 | cds | g9256.t1.CDS1 | 1328324 | 1328373 |
| chr_1 | g9256 | g9256.t1 | exon | g9256.t1.exon2 | 1328446 | 1328581 |
| chr_1 | g9256 | g9256.t1 | cds | g9256.t1.CDS2 | 1328446 | 1328581 |
| chr_1 | g9256 | g9256.t1 | exon | g9256.t1.exon3 | 1328658 | 1328888 |
| chr_1 | g9256 | g9256.t1 | cds | g9256.t1.CDS3 | 1328658 | 1328888 |
| chr_1 | g9256 | g9256.t1 | exon | g9256.t1.exon4 | 1328959 | 1330169 |
| chr_1 | g9256 | g9256.t1 | cds | g9256.t1.CDS4 | 1328959 | 1330169 |
| chr_1 | g9256 | g9256.t1 | exon | g9256.t1.exon5 | 1330285 | 1332169 |
| chr_1 | g9256 | g9256.t1 | cds | g9256.t1.CDS5 | 1330285 | 1332169 |
| chr_1 | g9256 | g9256.t1 | TSS | g9256.t1 | NA | NA |
Sequences
>g9256.t1 Gene=g9256 Length=3513
ATGATAGTAACTAGCAGCTTAATACAATCAGTTAATTGTATAAGAGGATGGACTGATCCA
AAAGGACAAATAATAATTGAGAAGGGAACCAGATTGAGCATTAAATGTGTAGTAGAAAGT
GACAATGAAGTTTATTCCAACACACAATTAAGTAAAAGACTTGGCTTCTTCTTCCAAGGA
AATGTGAAAGTTGATCAAAAATATATCAATATTTTAAATGATACTGCAATTGAGTTGGTT
ATACCAAAAGTGCCTGAGCAAGAGTCAATGTTTTTATGCAAATTTGACGATGAAAAAGGA
ATTACATATAATGATGTTAAAGTTGGTCACAAACCAGATGAGATTGAACACATAGATTGT
GTTTCACGCAATTGGGAAAATTTAACATGCACTTTCAAAAAGCCATATAATCCAGTTTAT
GTGCAATATGAGCTTAAATATCGTCTCGATAAATCAAGTTTGGTACACATTTGTCAAGTA
GAATTATCTGATCCAGATATTTTCCAATGCACTGTTGAAGAAGTTTCATATCGTCGTTAC
AGTGAAAATTTTATATTAACACTCACTTCAACTAATCTTTTTGGAACAAGAAATCAATCA
TTTGAGTTTGATAATTTTGCAAGTGTTATTCCCGGAAAAGTGGAAAATCTTAATAAAATT
GAAACATCTGATAATATAACTATATCATGGTTGGCATCAAAGAAACTTGCGGTATTTCCC
AAAAATTTTGACGTTGAAATCTCTATCAATTCTTCACTCGAATGTAATGCTAAAGAAGAG
AAAATTTTATTGCGAAATTTCACTACTCATAAAGAAAAATCAAGTCGCAGTGTTGAAAAG
AATATATTTGAATATACCATACCAGTCAAGTTTCCCAACAAATGGTATGATGTAGGTGTC
AGAATGAAAGTTGCTATGGCAAAAGATGAAGAGAAAATGTGGAGTGAAATGGAAAAAATT
CAAGCTTTCACCTTATCACGTGCTCCTGACAATCCGCCAGAAATTAACATAGGATCATTC
AATATTCTTCCAAATGGTGATGCTTATATTTACTGGAAGCACTTACATACTTGTTCATGG
AATGGAAATGGTTTTAACTATTCTATAAAGTCAAGTGGCAAACAAGAAAATCCTTCTGAG
CAACATTTGACCTATGCTGTTTACCGTCAGGATTTCAATAATCGCACAGAAGATACGACA
TTTTATATAAGAAGCAACAATTCTGAAGGAATGTCTCGCGATGCAAGTGTTTTAGTTATC
CCTGGTAAAAATCGACGACTTCGTGGGCCTACAAAAATTAACAAAAAGTCTATAAATGGA
ACTTATGTTTTGACATGGTCACCACCTGAATATAACGTCGAAGAAATAATTTCTTATACA
GTTTTTTGGTGCACATCAAAAACTGAACTCATAAATAGCTGTGAAAGTTCAATCGATTTC
AAAGAACATAAACCACATGAGACAACCTTTATGCATGAATCGGATCAGACTGTCAACTTT
GCGATTTCTGCTAATTCTAGAACCTCAACTTCGGGTATGATGTGGGCAAAATGCACAACA
GCAAATAGCTATGAGATAGGAAAAATCCGCACAGCACGAATTTCACGGCTTACATCGAAA
GAGATTGAAGTAGAGTGGAATTTAGATTGTACAGATTTGGGTATCGTTGCGGGCTATCAA
ATTGAGTATTGCCCAACAAATAAGCCTAAAACATTAGAGTGCATTACTGGCTCAGAAAAC
AGAACAAACATCACGACTCACGTCGAAAAATATACTTTGAGTGATCTTAAGCCTTATACA
ACTTATAAAATTGTCATTCGCATGTTTTCAAATTCAACAATGGGCCCACCGAGCGAACCG
TTAGCTAATACGACGCTTGAAGACGCTCCTTCTGAAGTTCGTAATTTGATTGCGCGTAAC
GTTGGAAACACGTCTGTTGATCTCTATTGGGATCCACCTGAGGAAATCAATGGTGTTCTT
GGTTCTTATGACATCTGGAAAAATGGAAATGTGCATCATCGCATTGAAATCCCAAAGACT
TTTGATAGCGAACATTTGAACGTGACGAAAATGAATTACACTCTTGAAGGATTATTGCCA
TATGAGGATTATGAAATTATTGTGCTTGCGTGTACAAATAAGTGTTCTGTGGCTACTACA
ACAAAGATTAGAACAACAATCGGTGCACCTGGCGGTTTCAAAAAGCAGCCAACATTAAAT
GATAAAGGATCAACTATTTTTAATAGTACTTACACAAGTGGTATTATAAGCTGGGATGAA
CCGGAATTTAAAGGTGGTAATCTAGATTTTTATGAGTTAAAAACGAGTTTTCAAGGCAAT
GATGGTACCATAGAAAAGAATATTATAAAATTAAAATCAAATGAATGCTTTGTTGAGAAA
TTGTGTGTCACTAATGTTACTGGAACCGTCCGATTCTCAGTTCGCGCTGTCAATTTTGTT
ATGACACCACATGCAAAAGATCGAGACTTTTTGATCACAGGAAAAAAGGTTGAAAAAAAT
TCACAAAATTATTGTGTCAACGATGAAGTGCTTCTAGAATCAATGAGAATTGCATCACAA
ATTGATCCCTTTGGATACTATTTATATGGTCCATGGTCTGAATCTTCAGGTCACACTTGC
CATTATAATAATATCAATTCACGGCAGTACATCTTAATAATGATTTTAATGGTCGCATCA
CTCGTATTTGTTGTCATGGTATTTTATTTATATAGACGAATTAAAGACATGAAAGACATT
TTAGTACAAATGCCGCCAGGACTCGAAGACCTTCAATCAGAAAAAATCAAAAAGGGAAAA
GATTCGAGTACTGATAAAATTGGAAAGCCTGATTTGCTTCATAATATTGAGAGTCCATAT
ACTATGAATGAAGATGAGCATGGACGATTATTAAAGAGATCATTGAATGGAAGCATTAAT
GGTGCTGATTGCAGTAGTAGCATACACAGTGAAAGTAGTAGTATGGATCAAGCCGAAATG
GCAGATGAAATTGAATACAATGACCTTGGTCAGCAAAATAACATGAGTGATGGTGAAATT
GAGACATCAACGGCAGCAGCTAATCAACGACCTCAGAGTTTCATCATGAACTCATCAGTT
CCTAAAGAAATTGCTCCTATACTAATATCACCAGAATCAATATCATCGTCATCACCACCT
ATTACAGATAATATTCCTAAACCAAATTCATTAATACATCAACCTAAGACGCCAGTGAGT
GTTTATGTCGCACCACCAGTAATGCATTCAACTCCAATTCCTCCACAAATTAATAGTAAT
GGTTATGTGACGCATTCAATGTTAAACCCGATTCAATCTAACAATGGATATACGCAACTT
AATGCATTAGGAAAACCAATAATCAACAATGATCGGCATTTTATTGATAAAATGAGCATA
AAAACACCAATTGTTGCAACAACAGATCAAGAAGGAATTTCAGGTTATGTGACACACAAA
CAGCTTTCTGATTTCGGACATCGAATGCAATAA
>g9256.t1 Gene=g9256 Length=1170
MIVTSSLIQSVNCIRGWTDPKGQIIIEKGTRLSIKCVVESDNEVYSNTQLSKRLGFFFQG
NVKVDQKYINILNDTAIELVIPKVPEQESMFLCKFDDEKGITYNDVKVGHKPDEIEHIDC
VSRNWENLTCTFKKPYNPVYVQYELKYRLDKSSLVHICQVELSDPDIFQCTVEEVSYRRY
SENFILTLTSTNLFGTRNQSFEFDNFASVIPGKVENLNKIETSDNITISWLASKKLAVFP
KNFDVEISINSSLECNAKEEKILLRNFTTHKEKSSRSVEKNIFEYTIPVKFPNKWYDVGV
RMKVAMAKDEEKMWSEMEKIQAFTLSRAPDNPPEINIGSFNILPNGDAYIYWKHLHTCSW
NGNGFNYSIKSSGKQENPSEQHLTYAVYRQDFNNRTEDTTFYIRSNNSEGMSRDASVLVI
PGKNRRLRGPTKINKKSINGTYVLTWSPPEYNVEEIISYTVFWCTSKTELINSCESSIDF
KEHKPHETTFMHESDQTVNFAISANSRTSTSGMMWAKCTTANSYEIGKIRTARISRLTSK
EIEVEWNLDCTDLGIVAGYQIEYCPTNKPKTLECITGSENRTNITTHVEKYTLSDLKPYT
TYKIVIRMFSNSTMGPPSEPLANTTLEDAPSEVRNLIARNVGNTSVDLYWDPPEEINGVL
GSYDIWKNGNVHHRIEIPKTFDSEHLNVTKMNYTLEGLLPYEDYEIIVLACTNKCSVATT
TKIRTTIGAPGGFKKQPTLNDKGSTIFNSTYTSGIISWDEPEFKGGNLDFYELKTSFQGN
DGTIEKNIIKLKSNECFVEKLCVTNVTGTVRFSVRAVNFVMTPHAKDRDFLITGKKVEKN
SQNYCVNDEVLLESMRIASQIDPFGYYLYGPWSESSGHTCHYNNINSRQYILIMILMVAS
LVFVVMVFYLYRRIKDMKDILVQMPPGLEDLQSEKIKKGKDSSTDKIGKPDLLHNIESPY
TMNEDEHGRLLKRSLNGSINGADCSSSIHSESSSMDQAEMADEIEYNDLGQQNNMSDGEI
ETSTAAANQRPQSFIMNSSVPKEIAPILISPESISSSSPPITDNIPKPNSLIHQPKTPVS
VYVAPPVMHSTPIPPQINSNGYVTHSMLNPIQSNNGYTQLNALGKPIINNDRHFIDKMSI
KTPIVATTDQEGISGYVTHKQLSDFGHRMQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 17 | g9256.t1 | CDD | cd00063 | FN3 | 533 | 625 | 4.6169E-10 |
| 18 | g9256.t1 | CDD | cd00063 | FN3 | 630 | 726 | 4.56801E-9 |
| 13 | g9256.t1 | Coils | Coil | Coil | 1169 | 1170 | - |
| 12 | g9256.t1 | Gene3D | G3DSA:2.60.40.10 | Immunoglobulins | 109 | 211 | 5.4E-10 |
| 10 | g9256.t1 | Gene3D | G3DSA:2.60.40.10 | Immunoglobulins | 423 | 521 | 5.6E-5 |
| 11 | g9256.t1 | Gene3D | G3DSA:2.60.40.10 | Immunoglobulins | 522 | 628 | 2.4E-17 |
| 9 | g9256.t1 | Gene3D | G3DSA:2.60.40.10 | Immunoglobulins | 629 | 731 | 1.9E-13 |
| 4 | g9256.t1 | PANTHER | PTHR46957 | CYTOKINE RECEPTOR | 184 | 671 | 1.2E-28 |
| 3 | g9256.t1 | PANTHER | PTHR46957 | CYTOKINE RECEPTOR | 622 | 767 | 1.2E-28 |
| 2 | g9256.t1 | Pfam | PF00041 | Fibronectin type III domain | 531 | 618 | 1.7E-9 |
| 1 | g9256.t1 | Pfam | PF00041 | Fibronectin type III domain | 631 | 714 | 1.4E-8 |
| 15 | g9256.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 889 | - |
| 16 | g9256.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 890 | 911 | - |
| 14 | g9256.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 912 | 1170 | - |
| 26 | g9256.t1 | ProSiteProfiles | PS50853 | Fibronectin type-III domain profile. | 426 | 526 | 6.809 |
| 24 | g9256.t1 | ProSiteProfiles | PS50853 | Fibronectin type-III domain profile. | 528 | 628 | 15.44 |
| 25 | g9256.t1 | ProSiteProfiles | PS50853 | Fibronectin type-III domain profile. | 629 | 729 | 13.586 |
| 22 | g9256.t1 | SMART | SM00060 | FN3_2 | 211 | 310 | 120.0 |
| 20 | g9256.t1 | SMART | SM00060 | FN3_2 | 427 | 511 | 47.0 |
| 21 | g9256.t1 | SMART | SM00060 | FN3_2 | 526 | 617 | 0.028 |
| 23 | g9256.t1 | SMART | SM00060 | FN3_2 | 630 | 716 | 5.1E-7 |
| 6 | g9256.t1 | SUPERFAMILY | SSF49265 | Fibronectin type III | 109 | 200 | 1.45E-6 |
| 5 | g9256.t1 | SUPERFAMILY | SSF49265 | Fibronectin type III | 430 | 512 | 7.54E-5 |
| 8 | g9256.t1 | SUPERFAMILY | SSF49265 | Fibronectin type III | 533 | 714 | 3.94E-31 |
| 7 | g9256.t1 | SUPERFAMILY | SSF49265 | Fibronectin type III | 679 | 801 | 1.38E-8 |
| 19 | g9256.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 889 | 911 | - |
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:0005515 | protein binding | MF |
KEGG
Orthology
- This transcript has been annotated with K19599 (cytokine receptor domeless)
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.
