General information for g6958.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Translocation protein SEC63-like protein.
Parent gene
- The parent gene g6958 is located on chr_2: 20178568..20180178 (+ 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_2 | g6958 | g6958.t1 | TSS | g6958.t1 | 20177488 | 20177488 |
| chr_2 | g6958 | g6958.t1 | isoform | g6958.t1 | 20177551 | 20180178 |
| chr_2 | g6958 | g6958.t1 | exon | g6958.t1.exon1 | 20177551 | 20177674 |
| chr_2 | g6958 | g6958.t1 | cds | g6958.t1.CDS1 | 20177551 | 20177674 |
| chr_2 | g6958 | g6958.t1 | exon | g6958.t1.exon2 | 20177819 | 20179562 |
| chr_2 | g6958 | g6958.t1 | cds | g6958.t1.CDS2 | 20177819 | 20179562 |
| chr_2 | g6958 | g6958.t1 | exon | g6958.t1.exon3 | 20179619 | 20179703 |
| chr_2 | g6958 | g6958.t1 | cds | g6958.t1.CDS3 | 20179619 | 20179703 |
| chr_2 | g6958 | g6958.t1 | exon | g6958.t1.exon4 | 20179768 | 20179933 |
| chr_2 | g6958 | g6958.t1 | cds | g6958.t1.CDS4 | 20179768 | 20179933 |
| chr_2 | g6958 | g6958.t1 | exon | g6958.t1.exon5 | 20180000 | 20180178 |
| chr_2 | g6958 | g6958.t1 | cds | g6958.t1.CDS5 | 20180000 | 20180178 |
| chr_2 | g6958 | g6958.t1 | TTS | g6958.t1 | 20180419 | 20180419 |
Sequences
>g6958.t1 Gene=g6958 Length=2298
ATGGGACAAAAATTTCAATATGATGAAAGTGGGAGCACTTTCTTTTATTTCATCCTTTCA
TTCCTAGCATTGATTTTAATTCCCGCGACGTTTTATTTTTGGCCAACTCGAAAGAAATCA
GAAGATCCCAACAAAGCTAAAGAAGAATGTCAATGTGAAGGATGCTGTGAAAAGCGAGTA
ATAATAGCGAATATTGATCCATATAAAAATTTAAAATCTCTAGCTGTAAAAGCTTCACTA
GTTTTTGGATGGATGCTACTTATATTTCTAGCTTATAAAGTTTCTCAATTTGATTATGAA
ATGTCAAATTTTGATCCCTATGAAATTTTGGGTGTACCTATTGGTTCATCAAAAGCAGAA
GTAAAGAAAGCATATTTCAAACTTTCTACAATTTGGCATCCTGATAAAAATACTGGTGAT
GAAAAAGTTTTCGTAAAATTAACAAAAGCTTATAAAGCATTGACTGACGACGAGGCTCGT
AAAAATTGGGAAAAGTATGGCAATCCTGATGGTCCAGCAGCAATGTCATTTGGAATCGCA
TTACCTTCATGGATAGTTGAAAAAGAAAATTCTGTTTGGGTGCTTGGTCTTTATGCGCTT
GTATTTATGGTAGCATTACCAATTGCTGTTGGCACATGGTGGTATCGAAGTATTCGTTTT
AGTGGTGACAAAGTTCTTCTTGATACAACACAACTATATTTTTACTTTTTTCACAAAACT
CCGAATATGGCTTTAAAGCGCGTCATTATGATTCTGGCAGCATCATTAGAATTCGATAAG
CGTCACAATTCACAAGTCACAGAGCGACCAACAGATAATGAAGAAGTTCCGTCACTAATT
AAGCAACTGCCGCATTTAAATGAAAAATGCAAGGAACTTCCTCTTTGTCGTAACTATTCT
GTAAAAACTAGAGCACTTATTCACGCACATTTGAGTCGACTACCGTTAAACCCTAACACA
CTAGAAAAAGATAGACAATTTGTGTTAAGAAAATGCCCTTATTTAGTTCAAGAGATGGTT
TCTGTTGTCAATCAGCTCATTATGCTCGCATATGCTGGAAGAATATCAGCATCAAAATTG
CCACCAATTGAAACTATTGAAAATTGTATGAAACTCTCACCAATGCTTATTCAAGGTTTA
TGGGAATTCAAATCACCTTTACTGCAATTACCGCATTTAACTGAAGACAATTTGAAATAT
TTTGTTAACAAGAAGCGTTACATAAAAAGTCTTCAACAATTTGCAAAGCTTCCCGAGAGT
GAGAGTCGTAGTTTATTGCGTGATTTTACTGATGAGGAGTATTCAAATGTTATCAAAGTT
CTAAGTAAAATGCCTCTCATTGATTTTAGTATCAAAGTTGAAGTTGTTGATGATGAAAAT
AGTAATGTTGTGACAGCTGGAGCGATCGTTACTGTCACAGTGAATCTTGTTCGAAGAAAT
ATGAGTGATCTTTTTGGAGATTCTTCAGCTGCAGAAAAGCAGTCAATTAAAGAAAGTAAT
AATGATGGTGAAGATAATGGTAATGCTGCTGAAGGTGAACAAAAAGAAAATGTACAACCA
ACTACTGCAAAGAAACCAGTGTGGTTAAAAAAGAGTCATAAGAGTAAGTCCAAATCAAAA
ACTACAAAAGCGAAACCTGCTATTGGAGCGATGAAACAAACTACTGTGACTACAAACAAT
ATAAAAGAAAATAGTAATGTCTCAAAAGAGCATAATGTTAAGCAACCTATTAAAGATGAA
AATGATTCTGATGCTGATGAATCGAGTGCAGAAAGTGACAATGAAAATGCAGATCATGAA
GCTGATCGATCGACTGATGATGAGAGAAAAACTTCTTCTGTTGAAGATGATGATATGGAA
TGGGAAAAGTTTCAACAAAAACTAAATAAGCGTGAAAAATTAGAAGGAAGATCAAAAAAT
TCGCATAGTGTTCATTGTCCACTATATCCTGAAGACAAACAAGAATACTGGTGGACATAT
ATTTGTGATAGAAAATCACAAACTCTTTTGACTGCACCTTATCATGTCACAAATTTAGTA
GATCATCAAGAAGTGCAATTGAAATTTACAGCTCCAAGGTGGCCGGGAATTTTTACATTT
ACTGTTTGTTTAAGATCAGATTCATACATGGGAATGGATCAACAATTAGATTTGAAATTA
GATGTAAAAGAAGCTCCAGCAATACCGACTGAACATCCGCAATGGAACATAAGTGAATCA
GAAGAAGAACATCAAGAAGAGAAAAATAATGAAAGTGAATTCACTACTGATTCAGAAATG
TCTGATACTGAGAAATAG
>g6958.t1 Gene=g6958 Length=765
MGQKFQYDESGSTFFYFILSFLALILIPATFYFWPTRKKSEDPNKAKEECQCEGCCEKRV
IIANIDPYKNLKSLAVKASLVFGWMLLIFLAYKVSQFDYEMSNFDPYEILGVPIGSSKAE
VKKAYFKLSTIWHPDKNTGDEKVFVKLTKAYKALTDDEARKNWEKYGNPDGPAAMSFGIA
LPSWIVEKENSVWVLGLYALVFMVALPIAVGTWWYRSIRFSGDKVLLDTTQLYFYFFHKT
PNMALKRVIMILAASLEFDKRHNSQVTERPTDNEEVPSLIKQLPHLNEKCKELPLCRNYS
VKTRALIHAHLSRLPLNPNTLEKDRQFVLRKCPYLVQEMVSVVNQLIMLAYAGRISASKL
PPIETIENCMKLSPMLIQGLWEFKSPLLQLPHLTEDNLKYFVNKKRYIKSLQQFAKLPES
ESRSLLRDFTDEEYSNVIKVLSKMPLIDFSIKVEVVDDENSNVVTAGAIVTVTVNLVRRN
MSDLFGDSSAAEKQSIKESNNDGEDNGNAAEGEQKENVQPTTAKKPVWLKKSHKSKSKSK
TTKAKPAIGAMKQTTVTTNNIKENSNVSKEHNVKQPIKDENDSDADESSAESDNENADHE
ADRSTDDERKTSSVEDDDMEWEKFQQKLNKREKLEGRSKNSHSVHCPLYPEDKQEYWWTY
ICDRKSQTLLTAPYHVTNLVDHQEVQLKFTAPRWPGIFTFTVCLRSDSYMGMDQQLDLKL
DVKEAPAIPTEHPQWNISESEEEHQEEKNNESEFTTDSEMSDTEK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 22 | g6958.t1 | CDD | cd06257 | DnaJ | 105 | 156 | 1.86855E-16 |
| 14 | g6958.t1 | Coils | Coil | Coil | 760 | 765 | - |
| 12 | g6958.t1 | Gene3D | G3DSA:1.10.287.110 | - | 99 | 176 | 1.6E-19 |
| 11 | g6958.t1 | Gene3D | G3DSA:1.10.3380.10 | - | 244 | 382 | 2.0E-12 |
| 13 | g6958.t1 | Gene3D | G3DSA:2.60.40.150 | - | 611 | 730 | 2.7E-26 |
| 28 | g6958.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 489 | 521 | - |
| 30 | g6958.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 489 | 620 | - |
| 29 | g6958.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 527 | 541 | - |
| 32 | g6958.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 551 | 566 | - |
| 33 | g6958.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 567 | 583 | - |
| 35 | g6958.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 592 | 620 | - |
| 34 | g6958.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 727 | 765 | - |
| 31 | g6958.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 736 | 765 | - |
| 4 | g6958.t1 | PANTHER | PTHR24075 | SEC63 DOMAIN-CONTAINING | 3 | 762 | 3.1E-172 |
| 5 | g6958.t1 | PANTHER | PTHR24075:SF0 | TRANSLOCATION PROTEIN SEC63 HOMOLOG | 3 | 762 | 3.1E-172 |
| 7 | g6958.t1 | PRINTS | PR00625 | DnaJ domain signature | 107 | 125 | 4.7E-7 |
| 6 | g6958.t1 | PRINTS | PR00625 | DnaJ domain signature | 125 | 140 | 4.7E-7 |
| 3 | g6958.t1 | Pfam | PF00226 | DnaJ domain | 105 | 163 | 2.2E-16 |
| 1 | g6958.t1 | Pfam | PF02889 | Sec63 Brl domain | 238 | 475 | 1.1E-11 |
| 2 | g6958.t1 | Pfam | PF02889 | Sec63 Brl domain | 638 | 718 | 1.7E-7 |
| 17 | g6958.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 13 | - |
| 20 | g6958.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 14 | 34 | - |
| 15 | g6958.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 35 | 73 | - |
| 19 | g6958.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 74 | 92 | - |
| 18 | g6958.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 93 | 191 | - |
| 21 | g6958.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 192 | 215 | - |
| 16 | g6958.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 216 | 765 | - |
| 36 | g6958.t1 | ProSiteProfiles | PS50076 | dnaJ domain profile. | 105 | 167 | 17.71 |
| 26 | g6958.t1 | SMART | SM00271 | dnaj_3 | 104 | 159 | 1.3E-18 |
| 27 | g6958.t1 | SMART | SM00973 | Sec63_2 | 225 | 720 | 2.2E-7 |
| 10 | g6958.t1 | SUPERFAMILY | SSF46565 | Chaperone J-domain | 101 | 203 | 1.7E-23 |
| 9 | g6958.t1 | SUPERFAMILY | SSF158702 | Sec63 N-terminal domain-like | 244 | 445 | 6.02E-35 |
| 8 | g6958.t1 | SUPERFAMILY | SSF81296 | E set domains | 457 | 724 | 1.09E-24 |
| 25 | g6958.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 13 | 35 | - |
| 24 | g6958.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 73 | 92 | - |
| 23 | g6958.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 193 | 215 | - |
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:0031204 | posttranslational protein targeting to membrane, translocation | BP |
KEGG
Orthology
- This transcript has been annotated with K09540 (translocation protein SEC63)
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.
