General information for g9257.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Cytokine receptor.
Parent gene
- The parent gene g9257 is located on chr_1: 1335956..1338808 (- 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 | g9257 | g9257.t1 | TTS | g9257.t1 | 1332500 | 1332500 |
| chr_1 | g9257 | g9257.t1 | isoform | g9257.t1 | 1332870 | 1336599 |
| chr_1 | g9257 | g9257.t1 | exon | g9257.t1.exon1 | 1332870 | 1334317 |
| chr_1 | g9257 | g9257.t1 | cds | g9257.t1.CDS1 | 1332870 | 1334317 |
| chr_1 | g9257 | g9257.t1 | exon | g9257.t1.exon2 | 1334380 | 1334700 |
| chr_1 | g9257 | g9257.t1 | cds | g9257.t1.CDS2 | 1334380 | 1334700 |
| chr_1 | g9257 | g9257.t1 | exon | g9257.t1.exon3 | 1334766 | 1335879 |
| chr_1 | g9257 | g9257.t1 | cds | g9257.t1.CDS3 | 1334766 | 1335879 |
| chr_1 | g9257 | g9257.t1 | exon | g9257.t1.exon4 | 1335956 | 1336231 |
| chr_1 | g9257 | g9257.t1 | cds | g9257.t1.CDS4 | 1335956 | 1336231 |
| chr_1 | g9257 | g9257.t1 | exon | g9257.t1.exon5 | 1336313 | 1336443 |
| chr_1 | g9257 | g9257.t1 | cds | g9257.t1.CDS5 | 1336313 | 1336443 |
| chr_1 | g9257 | g9257.t1 | exon | g9257.t1.exon6 | 1336530 | 1336599 |
| chr_1 | g9257 | g9257.t1 | cds | g9257.t1.CDS6 | 1336530 | 1336599 |
| chr_1 | g9257 | g9257.t1 | TSS | g9257.t1 | NA | NA |
Sequences
>g9257.t1 Gene=g9257 Length=3360
ATGCTTCACATTGTCCTAGTGGCATTTATTGTTTTCTTTATTATTTGTGGCATCGAGGGC
GTGCAAAATGGCGGCCTAAAAAGTGACACATATGCAAAAATAAATGAAACATTTGAACTC
AGATGCTCGGTTTCACAATCTGGTGGAAAATTAGATTTCTATGACGATAATGACGATATT
ATACCCGAAAGCTTTTTGAAGCGCATTGATGATTCGTGTGTCATATACACAAACTCATAT
TCAAAACCGACAAGGAAAAATATTACGTGTAAACGAAAAGACGAACAACGCAATCGACTC
GATAATATTGGAATGAGTGCTATTTGGGTTGATGGAGAGATAGCTCCTGTTAGTGATTTC
AAATGTCGCACAAGAGATTTTCAAAATTTAACATGTAGTTTTAAATCACCAATGAGCTTA
ATTACGCCAAAATATGAACTCAAATATATTAGTAAACATAGTAAAAATAACAAAAAGAAA
CCTTTAGAATGTGCAGTCGAGCTCGAAAGTCAAGGCAATCATTCATGTCGGATTAATTTA
CCCAATGTTTCGATAAAGGCTGTTTTTAACTTCACACTCTACGCGAATAAAGAAAAGTTG
AATTACTCGAAGGTGGAGAAATTTGAAATTCATTTACTTGAATCCTTAGTACCTCGAAAA
TTAGAGGCAGCCTTTGTGCGTGTTTCAAAACCACAACACAATTCTGCGAGTAATGCTTCT
ATTGTTTTCAAGTTACCAAGGGAATTAGAGAAAGCTTCAAGAGAGTTGATGTTTGATGTA
CATTTGAAAGCAAAAGAGGAAAGTGAGTCGAAATGGAAGTATTTAAGTTTCTCAAATTAC
GAAGAAAATGCAGGCGAAAAGTATCTATCTCTTAAGGATCTTGAGTTTGCTAACACCATT
TATCAATATAAAGTTCGTATCAAATCAAAAACTTCTCAGGATATTGATGAAATGTGGTCG
CCATATTTTATGAAAACGTTCAAAACAAATCCTAAACCCCCAGAGATGATTGCAAAAGTT
TGCAAAAACTGTTTCAATATTATGGACAATGGGAATATTTTTCTTCATTGGATGGAAGTT
TCGAAATTTTACCAAAATGGTGATAACTTTTCATATCTCGTACATATTTTGAATGAAGAG
AAAAAGATTTTATATGAAGAGCGTCATGAAAAATCGATGCTTATGATACCAAAGGATATC
AATGCAACAGCTGTAACTGTTCATATTTATAGCTCAAATGATTTGGGTCTATCAAAACAT
CATAGCATCGCATACATTCCTATCATTGAAAACAAAAACCTGTTGAACATTAAAAAGGAA
TTGATAGATGGTATTGGTTACAAGCTGTCATGGAAACTCGAAGCAGTTGATGCTTTTGAC
GTCGTCAGCTATACTGTTCTCTTTTGCCGACAAAAAAATGAACTTCCAAATCAATGTGAC
AGTTCGATAAAATTTATTGAATTATCATCAAATGATTTCGAATTTGTGCTTAACACTACC
GCACACAGTTATCAATTCGGTGTTGCTGTAAATATTCGTGGTCAAGTATCGGGTTTTCAA
TGGGCAAAATGTACTGCTTCAAAACCTAATGAAATCGGAGTGTTACGCTCAATATGGAGT
CGATTTGTTACAGAACATTTCATATTGCTCGAATGGAAGTTGAATTGTGCTGATAAAGAT
ATTGTCTACGGATATAATATTACATATTGCATTATCGCAGACTACGACAGGAATTTATGC
ATGGAAAATCCTAAACATGAAATCATTTTAGATAACCATGACAATAGAAATATTTATCAA
ATTTCGTCTCTAAAACCATACAAGCAGTATAACATATCCGTCGCAATGATAAGTACGAGT
GAGCGTACTGGGGCGTTTTCGACTCCCATTACAATACGAACATTGGAAGCATCGCCATCG
GCTCCTAGAAACTTACAGGCCATCGATGTAACTGCGAATTCAATTACGCTTTTATGGCAG
CGTCCTCTTGAAGTTAATGGTCCTTCATTAACTTATCAACTTTGGTGCAATGAAAAACGA
TTTATAATAGACAACAATCAAACGATGAATGTTAGCTATCGACATACAATTGAAAATTTG
AAGGCTTTTGCTCATTATACTGTGACAGTTGTTGCGTGCACACGAAATTGTTCAGACTCA
AGTGGTAGCTTAAATTTGAAAACAAAAATGGGAAAGCCTGGACGTATAAGTCAATTTCAA
TTAGAATTATTTGATAATCGAACAATTTTATTTAATTGGGAACCACCAAATTATTTAGGA
GGACATTTAAATTATTATTTATTGAAAATGTGGACAGATAATGAGAATTACCGATTTTAT
AAAATTAATGGGCAGCAAACAGATTGTATTATAAAAGCATTTACCTGTGATAATAGCAAT
GTAAATTTCGCTATAAAAGCAGTAAACATCAATGAAAGCGCAGTATTTAAAGATTTATTT
TTAAATTATTCTACTGAATGTCAATTGATATCAAGTAACTATGACAACCAAAATGGGCAT
TTACATGGAGAATATTCTGATCCAGAAACTATTATGTGTGGATTTGGCTACAAAAATTTA
ATTGCTATGGCTATTGCTTCACCAACTGAAGTGGCCATTACAACTTTATTTCTGTTATCA
ATATTAGGATTTTTAATATACGTTTTATTTAGAATTTATAACAGAATACAAGAAATGAAA
GATATACATATTGTATGGCCGGCAGGCATGGAATCTGATTCATATGATAAACCAGAAAAT
AGTATTATCAGTAGAAATAACAGTGATGGTGATTTAATGAAACTTGATATAGTTATGAGC
CATTCATTAAATAATAATAATAATAATAATAGTTTTACATATAATTTAAGTGATATTAAA
GAAGAGAGTTATCGAGATTTAGAAATTTATGAAGAAGCTTTTAAAAATAATGAAATGGAA
CAAAAGAGTTGTCATAAAATAAAAGATTTCGTAAGAGTACCATTTATTCCTAAAAGTAAA
ACATGTGAAAAATTTTCAAACGCTTCACTTGATGATTATAAAAGGTCTCATTCTGTCCCA
ACTTCACCTTATAAAGAAATTTCCAAAGATCATAATACAGATCAAAGTGCGGGCTATATG
AAAATGTATTCGCCTGTTAGATCCAATAATAGTATCAATAAGATTGTTGCTGCCGGTTAT
TGTGATATGTCTGGAAAATCTTCTTTGACCAACATTAATCACAGTAATGAAATAAAATCA
TTCATTCGAGACTCACAATTGAATAATGGCTATATACAACGGAAATCAATAATTTCAAAG
CCTTTTCCAATCGTTATTAATTCAAACGGCTATGTAGGTTTGAAAAACGTAAAAAATTAA
>g9257.t1 Gene=g9257 Length=1119
MLHIVLVAFIVFFIICGIEGVQNGGLKSDTYAKINETFELRCSVSQSGGKLDFYDDNDDI
IPESFLKRIDDSCVIYTNSYSKPTRKNITCKRKDEQRNRLDNIGMSAIWVDGEIAPVSDF
KCRTRDFQNLTCSFKSPMSLITPKYELKYISKHSKNNKKKPLECAVELESQGNHSCRINL
PNVSIKAVFNFTLYANKEKLNYSKVEKFEIHLLESLVPRKLEAAFVRVSKPQHNSASNAS
IVFKLPRELEKASRELMFDVHLKAKEESESKWKYLSFSNYEENAGEKYLSLKDLEFANTI
YQYKVRIKSKTSQDIDEMWSPYFMKTFKTNPKPPEMIAKVCKNCFNIMDNGNIFLHWMEV
SKFYQNGDNFSYLVHILNEEKKILYEERHEKSMLMIPKDINATAVTVHIYSSNDLGLSKH
HSIAYIPIIENKNLLNIKKELIDGIGYKLSWKLEAVDAFDVVSYTVLFCRQKNELPNQCD
SSIKFIELSSNDFEFVLNTTAHSYQFGVAVNIRGQVSGFQWAKCTASKPNEIGVLRSIWS
RFVTEHFILLEWKLNCADKDIVYGYNITYCIIADYDRNLCMENPKHEIILDNHDNRNIYQ
ISSLKPYKQYNISVAMISTSERTGAFSTPITIRTLEASPSAPRNLQAIDVTANSITLLWQ
RPLEVNGPSLTYQLWCNEKRFIIDNNQTMNVSYRHTIENLKAFAHYTVTVVACTRNCSDS
SGSLNLKTKMGKPGRISQFQLELFDNRTILFNWEPPNYLGGHLNYYLLKMWTDNENYRFY
KINGQQTDCIIKAFTCDNSNVNFAIKAVNINESAVFKDLFLNYSTECQLISSNYDNQNGH
LHGEYSDPETIMCGFGYKNLIAMAIASPTEVAITTLFLLSILGFLIYVLFRIYNRIQEMK
DIHIVWPAGMESDSYDKPENSIISRNNSDGDLMKLDIVMSHSLNNNNNNNSFTYNLSDIK
EESYRDLEIYEEAFKNNEMEQKSCHKIKDFVRVPFIPKSKTCEKFSNASLDDYKRSHSVP
TSPYKEISKDHNTDQSAGYMKMYSPVRSNNSINKIVAAGYCDMSGKSSLTNINHSNEIKS
FIRDSQLNNGYIQRKSIISKPFPIVINSNGYVGLKNVKN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 21 | g9257.t1 | CDD | cd00063 | FN3 | 543 | 634 | 5.06021E-5 |
| 20 | g9257.t1 | CDD | cd00063 | FN3 | 639 | 728 | 1.95695E-13 |
| 12 | g9257.t1 | Coils | Coil | Coil | 1114 | 1119 | - |
| 8 | g9257.t1 | Gene3D | G3DSA:2.60.40.10 | Immunoglobulins | 117 | 214 | 2.6E-6 |
| 11 | g9257.t1 | Gene3D | G3DSA:2.60.40.10 | Immunoglobulins | 525 | 636 | 1.3E-8 |
| 9 | g9257.t1 | Gene3D | G3DSA:2.60.40.10 | Immunoglobulins | 637 | 729 | 7.9E-16 |
| 10 | g9257.t1 | Gene3D | G3DSA:2.60.40.10 | Immunoglobulins | 730 | 818 | 3.8E-5 |
| 2 | g9257.t1 | PANTHER | PTHR46957 | CYTOKINE RECEPTOR | 288 | 1084 | 1.1E-18 |
| 3 | g9257.t1 | PANTHER | PTHR46957:SF3 | CYTOKINE RECEPTOR | 288 | 1084 | 1.1E-18 |
| 1 | g9257.t1 | Pfam | PF00041 | Fibronectin type III domain | 640 | 716 | 1.8E-10 |
| 15 | g9257.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 20 | - |
| 16 | g9257.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 3 | - |
| 17 | g9257.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 4 | 15 | - |
| 19 | g9257.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 16 | 20 | - |
| 14 | g9257.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 21 | 870 | - |
| 18 | g9257.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 871 | 890 | - |
| 13 | g9257.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 891 | 1119 | - |
| 28 | g9257.t1 | ProSiteProfiles | PS50853 | Fibronectin type-III domain profile. | 534 | 637 | 11.843 |
| 27 | g9257.t1 | ProSiteProfiles | PS50853 | Fibronectin type-III domain profile. | 641 | 731 | 15.89 |
| 25 | g9257.t1 | SMART | SM00060 | FN3_2 | 529 | 624 | 6.0 |
| 24 | g9257.t1 | SMART | SM00060 | FN3_2 | 639 | 720 | 5.5E-10 |
| 26 | g9257.t1 | SMART | SM00060 | FN3_2 | 733 | 813 | 30.0 |
| 5 | g9257.t1 | SUPERFAMILY | SSF49265 | Fibronectin type III | 117 | 201 | 3.14E-5 |
| 6 | g9257.t1 | SUPERFAMILY | SSF49265 | Fibronectin type III | 540 | 714 | 5.5E-27 |
| 4 | g9257.t1 | SUPERFAMILY | SSF49265 | Fibronectin type III | 718 | 809 | 5.09E-6 |
| 7 | g9257.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 20 | - |
| 22 | g9257.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 2 | 21 | - |
| 23 | g9257.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 871 | 893 | - |
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 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.
