General information for g9.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Protein dispatched.
Parent gene
- The parent gene g9 is located on chr_3: 117277..120058 (+ 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 | g9 | g9.t1 | TSS | g9.t1 | 116053 | 116053 |
| chr_3 | g9 | g9.t1 | isoform | g9.t1 | 116398 | 120058 |
| chr_3 | g9 | g9.t1 | exon | g9.t1.exon1 | 116398 | 116986 |
| chr_3 | g9 | g9.t1 | cds | g9.t1.CDS1 | 116398 | 116986 |
| chr_3 | g9 | g9.t1 | exon | g9.t1.exon2 | 117045 | 117277 |
| chr_3 | g9 | g9.t1 | cds | g9.t1.CDS2 | 117045 | 117277 |
| chr_3 | g9 | g9.t1 | exon | g9.t1.exon3 | 117335 | 120058 |
| chr_3 | g9 | g9.t1 | cds | g9.t1.CDS3 | 117335 | 120058 |
| chr_3 | g9 | g9.t1 | TTS | g9.t1 | NA | NA |
Sequences
>g9.t1 Gene=g9 Length=3546
ATGATTTTCTACTACAAATTGCTAGTTTTTCGTCCAGTATTGGTGCTTTCTGTGATTTTA
GTTTTTAGTCTCTCATGTATTTTAACAACAATATTACTAAAAAATCCACCAGATTTTTCT
GATCCTACTCTCGGATTTGTTACTCGTGGAACAGAAATTTCTATGCGTCTAACAACATGG
AAAAATTTACTAGAAGAAACACGTCCATCTGGAATTCTTCTTGTAAATCCAAAAGAACTG
CAGCAGCATGAATTTGATAAGAAACACCGCAAAAATAAGGCAAGGCATCAAAAGAAAAAA
CTTAAATTTGATGAGAAAATGAAAAAGTTGAAGGATTATGCTACTAATAAAAGTTACAAT
ACGGATATTGTATACAATTTGGATGATAATGAAAATGGTAATGATACATTGACTGAAAGC
CATCATACACATTGGGATTATGGTACAAATAAATCATACGATGAAGAGCGAGAAAATAAA
ATTAAAGAAGAGAAAAAAAAGAAATGGAAAGGATTTTTGAATCTCGATCCACCACCATTA
ACTTCTACTGATTTTCAAAGCACTAATGGTTATTTTTGTGAATCTCCAAATAAAGAATAT
ATACATTTTGTAATTAAGAGAACTCAATGGAACATAAATGAATCGATGTTTGACACAAAT
TCTTTATTGTCAATGTGTGAATTGGAGCAAAAACTTGTCGACACTGAAGGATATATTAAT
CTCTGTCAAAAAGAAATTTCATCTTCAGCATGTTGTAAACCTTGGTCTCTACCTAATTAT
GTGGCATTATTATCAAACAAAACTTCATGTTTTGATATAAATGATGAAGATGTTGCTTTA
GTCAAAACACTTTTATTTGATTGCTTTCAATATTATCATGGACTTAAGTTGGATTACGAT
TGTACACAATCGAAATGTCGTGTTCCTGATGAATGTGGACAATTCAATGCAGTTTATAAT
ATTTTGCACTTTTTGACTGATCGCAATTTTATTAAACTCAATGAAACAGTTGAAAATTTA
AGTGCAGCAATGATGTTTCTACCAATTGCAAGGAGCAAAGATGCTCTGCCATTTTATCAT
AATTTGATGAAAAAAGGTGAAAATGCTATGCAAAGTGATTTAGTTGGAGTTGTTGCTATG
GATTTAGGAATCAAAAATGCTCTTTTTGATGAGTCATTATTGAAAGATGCTTGGCTAGTT
GGATTAGGATTTCTTTTTGTCCTTATTTGCATGTGGCTGTATACATCATCATTTTTCGTC
ACTATCAATACAGTTTTTGCAATTATACTCTCACTGGGATTATCATATTTTATTTACAAC
ATGATCTTCAAACTCAAATTTTTTCCATTTATGAATTTACTAGTATTAATTGTAATCGTA
GGTATTGGATCAGATGATGCTTTCATATTTATGAAAATATGGCATTGCGTATATACAGAG
CGGTTTCGAAAAAATTTCAACTCACCATTGACACCATCTTCATCATTTGCATCAGAGCCT
TATTCAGAGTCACGAGATTTAGACTCATTAGTTGCCGTCATGGCTAAGACTTTGGAACAT
GCAAGCATTTCAATGTTTGTCACCTCATTAACAACAGCTGCAGCTTTTTATGCCTCATTT
GAAAGTTCAATTACAGCTGTTCGTTGTTTTGGGATTTTTGCTGGCACAACTGTAATGGTC
AATTATCTTTTAATGATTACATGGCTTCCAGCTGCTGTAGCGATTTCTGAACGGATTTAT
TGTTTCAGTAGAAGTTGGTTTATAAATATTGGATATTTTACATCTTCGATAGACAAATTT
TTAAAATGGTACAGTCAATTGAGTGGAAAAATTGAAAATTTAATTGTGACACTTGTAACA
AAATATTCAATTGTTTGGATAATTTTGCTCTTTGGATTTGGAGTTTTAAATGGAATTTTT
GTGCTTTATTGGCCTAAATTGGAACTTCCTGATACACAAACTTTTCGACTTTTTATTCAT
GACCATCCTTTTGAAATTTATGAAACACATTACAGGGACTTATTTTGGTTTGAAAAGATG
TACACATCAAGTGAAAGTTTTAAGTTACCAATTCGCTTTATTTGGGGAGTAAACGCAATT
GATAATGGTAATTATTTGGATCCTACTTCACGTGGAAGTTTACAATTTGATACAACTTTT
AATGTGTCAGCACCAGAAAGTCAAATTTGGTTATTAGAATTTTGTCAGCGACTAAAACGT
CAACCCTTCTATCAAATGTCATTTGGTTTGCTTGTACCAAATTGCTTTATTGAAAACTTA
ATCTCATGGATGGCGAGGAAATGCAAAGACAGTATGAGTGATATTGATCGAAATCCTTGT
TGTGAAAGTTCAACATTTCCATATTCACCAGACATTTTTGATTACTGTTTGCCAGAGTCA
ATTTTTGCACTATATGAAACACCGCGAGAATTTTTTATTCCTGGAGTTGCTGGTCCAAAA
TTTCAAATTGTCGAGCGAACAAATAATAGCATAATAACTCAAGTGAAAGCGATAGTTGTA
GAATGTGACAGTAATCAATCTTTTAGCCATTCTTTTTATGAAATGGAAAACTTTGTTACA
AGCGTTGAAAAATGGTTCAAAGATGAACTTGCAACTGCACCCATAGGTATGAAAAATGGG
TTTTTCACAAGTGAATTAGACTTTTATGATTTACAACAAACACTTTCTAAAGGAACAACA
ACCGCACTTATATTTTCAATGTCAATAGCATTTATTGTTTTGTTACTCTCTTCTCGTAAT
CTTTTTGTATCCTTCTTTGCAATCATAACTGTTACATTAACAATTTTATCCATTGTTGGA
ACGCTTGTTTTGCTTGGATGGAAATTAAACATACTCGAGAGTGTAGCGATGATAACAGCA
ATTGGTCTAGCTGTAGATTTCTCACTTCATTATGGAGTACAATATCGATATTCAAAAGAA
AATGATCGAATTTCATCAACAAAATTTGCTCTTCAAATGATTTCTCCAACTGTTATGGCA
GCAACAACAACAATGACGGCTGGATTTCTCATGATGCCTTCATCTGTACTCGCTTACACA
CAAATTGGTATCTTCTTAATTGTTTCTATGAGTATAAGTTGGATATATTCGACATTTTTT
CTCATGAGCTTGCTCTCATTTTGTGGACCCGAGTATGGTTTTGGTCAATTCTCAATTTCT
ACTGCGATAAATTTTAAAAATGGTCGAAACGATGGAAAGAATATCAAAAATCAAATTGAA
GCGATCAATAATAAAATTCAACAGCAAAGTAATGAACAATTGTTATCTGCCTCAAGTTCT
ACTGCTTGCAATTTTATGGAATCTGAAACTCATGAAATGGAAATGGACTCGCTCTCTAAT
TCAGTTGTTAAAACAATAAGTCTCAACAGTTCAACAACTATACCATCAATTTCATCAATG
CGACCACCATCTTTCAAAGAATCATTTACAAAGAAAAGGGCATTTATAAAAGATACAAGT
CCTTCAACAAATTCAACAGTAACTGTGTGCCAAGTTGATGATGATTCTGACTTTTATAAA
TTATAA
>g9.t1 Gene=g9 Length=1181
MIFYYKLLVFRPVLVLSVILVFSLSCILTTILLKNPPDFSDPTLGFVTRGTEISMRLTTW
KNLLEETRPSGILLVNPKELQQHEFDKKHRKNKARHQKKKLKFDEKMKKLKDYATNKSYN
TDIVYNLDDNENGNDTLTESHHTHWDYGTNKSYDEERENKIKEEKKKKWKGFLNLDPPPL
TSTDFQSTNGYFCESPNKEYIHFVIKRTQWNINESMFDTNSLLSMCELEQKLVDTEGYIN
LCQKEISSSACCKPWSLPNYVALLSNKTSCFDINDEDVALVKTLLFDCFQYYHGLKLDYD
CTQSKCRVPDECGQFNAVYNILHFLTDRNFIKLNETVENLSAAMMFLPIARSKDALPFYH
NLMKKGENAMQSDLVGVVAMDLGIKNALFDESLLKDAWLVGLGFLFVLICMWLYTSSFFV
TINTVFAIILSLGLSYFIYNMIFKLKFFPFMNLLVLIVIVGIGSDDAFIFMKIWHCVYTE
RFRKNFNSPLTPSSSFASEPYSESRDLDSLVAVMAKTLEHASISMFVTSLTTAAAFYASF
ESSITAVRCFGIFAGTTVMVNYLLMITWLPAAVAISERIYCFSRSWFINIGYFTSSIDKF
LKWYSQLSGKIENLIVTLVTKYSIVWIILLFGFGVLNGIFVLYWPKLELPDTQTFRLFIH
DHPFEIYETHYRDLFWFEKMYTSSESFKLPIRFIWGVNAIDNGNYLDPTSRGSLQFDTTF
NVSAPESQIWLLEFCQRLKRQPFYQMSFGLLVPNCFIENLISWMARKCKDSMSDIDRNPC
CESSTFPYSPDIFDYCLPESIFALYETPREFFIPGVAGPKFQIVERTNNSIITQVKAIVV
ECDSNQSFSHSFYEMENFVTSVEKWFKDELATAPIGMKNGFFTSELDFYDLQQTLSKGTT
TALIFSMSIAFIVLLLSSRNLFVSFFAIITVTLTILSIVGTLVLLGWKLNILESVAMITA
IGLAVDFSLHYGVQYRYSKENDRISSTKFALQMISPTVMAATTTMTAGFLMMPSSVLAYT
QIGIFLIVSMSISWIYSTFFLMSLLSFCGPEYGFGQFSISTAINFKNGRNDGKNIKNQIE
AINNKIQQQSNEQLLSASSSTACNFMESETHEMEMDSLSNSVVKTISLNSSTTIPSISSM
RPPSFKESFTKKRAFIKDTSPSTNSTVTVCQVDDDSDFYKL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g9.t1 | Coils | Coil | Coil | 1072 | 1092 | - |
| 7 | g9.t1 | Gene3D | G3DSA:1.20.1640.10 | Multidrug efflux transporter AcrB transmembrane domain | 875 | 1051 | 1.8E-12 |
| 3 | g9.t1 | PANTHER | PTHR45951:SF3 | PROTEIN DISPATCHED | 2 | 1058 | 0.0 |
| 4 | g9.t1 | PANTHER | PTHR45951 | PROTEIN DISPATCHED-RELATED | 2 | 1058 | 0.0 |
| 2 | g9.t1 | Pfam | PF02460 | Patched family | 424 | 643 | 1.8E-8 |
| 1 | g9.t1 | Pfam | PF02460 | Patched family | 882 | 1041 | 3.5E-5 |
| 16 | g9.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 11 | - |
| 22 | g9.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 12 | 33 | - |
| 13 | g9.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 34 | 396 | - |
| 30 | g9.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 397 | 414 | - |
| 20 | g9.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 415 | 419 | - |
| 26 | g9.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 420 | 439 | - |
| 14 | g9.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 440 | 450 | - |
| 25 | g9.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 451 | 474 | - |
| 17 | g9.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 475 | 520 | - |
| 23 | g9.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 521 | 540 | - |
| 9 | g9.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 541 | 551 | - |
| 32 | g9.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 552 | 575 | - |
| 21 | g9.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 576 | 623 | - |
| 28 | g9.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 624 | 644 | - |
| 12 | g9.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 645 | 897 | - |
| 33 | g9.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 898 | 916 | - |
| 15 | g9.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 917 | 921 | - |
| 29 | g9.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 922 | 947 | - |
| 11 | g9.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 948 | 953 | - |
| 27 | g9.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 954 | 973 | - |
| 18 | g9.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 974 | 992 | - |
| 24 | g9.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 993 | 1012 | - |
| 10 | g9.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1013 | 1023 | - |
| 31 | g9.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 1024 | 1047 | - |
| 19 | g9.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1048 | 1181 | - |
| 46 | g9.t1 | ProSiteProfiles | PS51257 | Prokaryotic membrane lipoprotein lipid attachment site profile. | 1 | 26 | 5.0 |
| 45 | g9.t1 | ProSiteProfiles | PS50156 | Sterol-sensing domain (SSD) profile. | 422 | 575 | 15.56 |
| 6 | g9.t1 | SUPERFAMILY | SSF82866 | Multidrug efflux transporter AcrB transmembrane domain | 374 | 575 | 3.53E-16 |
| 5 | g9.t1 | SUPERFAMILY | SSF82866 | Multidrug efflux transporter AcrB transmembrane domain | 856 | 1049 | 8.24E-24 |
| 40 | g9.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 7 | 29 | - |
| 41 | g9.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 398 | 420 | - |
| 44 | g9.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 425 | 443 | - |
| 36 | g9.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 453 | 475 | - |
| 34 | g9.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 521 | 540 | - |
| 43 | g9.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 550 | 572 | - |
| 35 | g9.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 622 | 644 | - |
| 42 | g9.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 898 | 917 | - |
| 38 | g9.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 922 | 944 | - |
| 39 | g9.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 954 | 973 | - |
| 37 | g9.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 1015 | 1037 | - |
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:0016021 | integral component of membrane | CC |
| GO:0007224 | smoothened signaling pathway | BP |
KEGG
Orthology
- This transcript has been annotated with K24680 (protein dispatched 1)
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.
