Gene loci information

Transcript annotation

  • This transcript has been annotated as Translocation protein SEC63-like protein.

Parent gene

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.t5 TSS g6958.t5 20177488 20177488
chr_2 g6958 g6958.t5 isoform g6958.t5 20177551 20180178
chr_2 g6958 g6958.t5 exon g6958.t5.exon1 20177551 20179562
chr_2 g6958 g6958.t5 cds g6958.t5.CDS1 20177797 20179562
chr_2 g6958 g6958.t5 exon g6958.t5.exon2 20179619 20179703
chr_2 g6958 g6958.t5 cds g6958.t5.CDS2 20179619 20179703
chr_2 g6958 g6958.t5 exon g6958.t5.exon3 20179768 20179933
chr_2 g6958 g6958.t5 cds g6958.t5.CDS3 20179768 20179933
chr_2 g6958 g6958.t5 exon g6958.t5.exon4 20180000 20180178
chr_2 g6958 g6958.t5 cds g6958.t5.CDS4 20180000 20180178
chr_2 g6958 g6958.t5 TTS g6958.t5 20180419 20180419

Sequences

>g6958.t5 Gene=g6958 Length=2442
ATGGGACAAAAATTTCAATATGATGAAAGTGGGAGCACTTTCTTTTATTTCATCCTTTCA
TTCCTAGCATTGATTTTAATTCCCGCGACGTTTTATTTTTGGCCAACTCGAAAGAAATCA
GAAGGTATGCACAATTTTAATTTTTTCTAGAAACGAAAATAGAGATAACAGTAAATTGAT
TCAAAGAAACGTGCCTGGATCTTTAATTTTCTGCTTTCTTGAATCGTGAAAAATTCATTA
ACAACTATGTTCCATAATTTTCTTTCAGATCCCAACAAAGCTAAAGAAGAATGTCAATGT
GAAGGATGCTGTGAAAAGCGAGTAATAATAGCGAATATTGATCCATATAAAAATTTAAAA
TCTCTAGCTGTAAAAGCTTCACTAGTTTTTGGATGGATGCTACTTATATTTCTAGCTTAT
AAAGTTTCTCAATTTGATTATGAAATGTCAAATTTTGATCCCTATGAAATTTTGGGTGTA
CCTATTGGTTCATCAAAAGCAGAAGTAAAGAAAGCATATTTCAAACTTTCTACAATTTGG
CATCCTGATAAAAATACTGGTGATGAAAAAGTTTTCGTAAAATTAACAAAAGCTTATAAA
GCATTGACTGACGACGAGGCTCGTAAAAATTGGGAAAAGTATGGCAATCCTGATGGTCCA
GCAGCAATGTCATTTGGAATCGCATTACCTTCATGGATAGTTGAAAAAGAAAATTCTGTT
TGGGTGCTTGGTCTTTATGCGCTTGTATTTATGGTAGCATTACCAATTGCTGTTGGCACA
TGGTGGTATCGAAGTATTCGTTTTAGTGGTGACAAAGTTCTTCTTGATACAACACAACTA
TATTTTTACTTTTTTCACAAAACTCCGAATATGGCTTTAAAGCGCGTCATTATGATTCTG
GCAGCATCATTAGAATTCGATAAGCGTCACAATTCACAAGTCACAGAGCGACCAACAGAT
AATGAAGAAGTTCCGTCACTAATTAAGCAACTGCCGCATTTAAATGAAAAATGCAAGGAA
CTTCCTCTTTGTCGTAACTATTCTGTAAAAACTAGAGCACTTATTCACGCACATTTGAGT
CGACTACCGTTAAACCCTAACACACTAGAAAAAGATAGACAATTTGTGTTAAGAAAATGC
CCTTATTTAGTTCAAGAGATGGTTTCTGTTGTCAATCAGCTCATTATGCTCGCATATGCT
GGAAGAATATCAGCATCAAAATTGCCACCAATTGAAACTATTGAAAATTGTATGAAACTC
TCACCAATGCTTATTCAAGGTTTATGGGAATTCAAATCACCTTTACTGCAATTACCGCAT
TTAACTGAAGACAATTTGAAATATTTTGTTAACAAGAAGCGTTACATAAAAAGTCTTCAA
CAATTTGCAAAGCTTCCCGAGAGTGAGAGTCGTAGTTTATTGCGTGATTTTACTGATGAG
GAGTATTCAAATGTTATCAAAGTTCTAAGTAAAATGCCTCTCATTGATTTTAGTATCAAA
GTTGAAGTTGTTGATGATGAAAATAGTAATGTTGTGACAGCTGGAGCGATCGTTACTGTC
ACAGTGAATCTTGTTCGAAGAAATATGAGTGATCTTTTTGGAGATTCTTCAGCTGCAGAA
AAGCAGTCAATTAAAGAAAGTAATAATGATGGTGAAGATAATGGTAATGCTGCTGAAGGT
GAACAAAAAGAAAATGTACAACCAACTACTGCAAAGAAACCAGTGTGGTTAAAAAAGAGT
CATAAGAGTAAGTCCAAATCAAAAACTACAAAAGCGAAACCTGCTATTGGAGCGATGAAA
CAAACTACTGTGACTACAAACAATATAAAAGAAAATAGTAATGTCTCAAAAGAGCATAAT
GTTAAGCAACCTATTAAAGATGAAAATGATTCTGATGCTGATGAATCGAGTGCAGAAAGT
GACAATGAAAATGCAGATCATGAAGCTGATCGATCGACTGATGATGAGAGAAAAACTTCT
TCTGTTGAAGATGATGATATGGAATGGGAAAAGTTTCAACAAAAACTAAATAAGCGTGAA
AAATTAGAAGGAAGATCAAAAAATTCGCATAGTGTTCATTGTCCACTATATCCTGAAGAC
AAACAAGAATACTGGTGGACATATATTTGTGATAGAAAATCACAAACTCTTTTGACTGCA
CCTTATCATGTCACAAATTTAGTAGATCATCAAGAAGTGCAATTGAAATTTACAGCTCCA
AGGTGGCCGGGAATTTTTACATTTACTGTTTGTTTAAGATCAGATTCATACATGGGAATG
GATCAACAATTAGATTTGAAATTAGATGTAAAAGAAGCTCCAGCAATACCGACTGAACAT
CCGCAATGGAACATAAGTGAATCAGAAGAAGAACATCAAGAAGAGAAAAATAATGAAAGT
GAATTCACTACTGATTCAGAAATGTCTGATACTGAGAAATAG

>g6958.t5 Gene=g6958 Length=731
MFHNFLSDPNKAKEECQCEGCCEKRVIIANIDPYKNLKSLAVKASLVFGWMLLIFLAYKV
SQFDYEMSNFDPYEILGVPIGSSKAEVKKAYFKLSTIWHPDKNTGDEKVFVKLTKAYKAL
TDDEARKNWEKYGNPDGPAAMSFGIALPSWIVEKENSVWVLGLYALVFMVALPIAVGTWW
YRSIRFSGDKVLLDTTQLYFYFFHKTPNMALKRVIMILAASLEFDKRHNSQVTERPTDNE
EVPSLIKQLPHLNEKCKELPLCRNYSVKTRALIHAHLSRLPLNPNTLEKDRQFVLRKCPY
LVQEMVSVVNQLIMLAYAGRISASKLPPIETIENCMKLSPMLIQGLWEFKSPLLQLPHLT
EDNLKYFVNKKRYIKSLQQFAKLPESESRSLLRDFTDEEYSNVIKVLSKMPLIDFSIKVE
VVDDENSNVVTAGAIVTVTVNLVRRNMSDLFGDSSAAEKQSIKESNNDGEDNGNAAEGEQ
KENVQPTTAKKPVWLKKSHKSKSKSKTTKAKPAIGAMKQTTVTTNNIKENSNVSKEHNVK
QPIKDENDSDADESSAESDNENADHEADRSTDDERKTSSVEDDDMEWEKFQQKLNKREKL
EGRSKNSHSVHCPLYPEDKQEYWWTYICDRKSQTLLTAPYHVTNLVDHQEVQLKFTAPRW
PGIFTFTVCLRSDSYMGMDQQLDLKLDVKEAPAIPTEHPQWNISESEEEHQEEKNNESEF
TTDSEMSDTEK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
19 g6958.t5 CDD cd06257 DnaJ 71 122 1.85589E-16
12 g6958.t5 Gene3D G3DSA:1.10.287.110 - 65 142 1.5E-19
11 g6958.t5 Gene3D G3DSA:1.10.3380.10 - 210 348 1.8E-12
13 g6958.t5 Gene3D G3DSA:2.60.40.150 - 577 696 2.5E-26
24 g6958.t5 MobiDBLite mobidb-lite consensus disorder prediction 455 487 -
30 g6958.t5 MobiDBLite mobidb-lite consensus disorder prediction 455 586 -
28 g6958.t5 MobiDBLite mobidb-lite consensus disorder prediction 493 507 -
31 g6958.t5 MobiDBLite mobidb-lite consensus disorder prediction 517 532 -
27 g6958.t5 MobiDBLite mobidb-lite consensus disorder prediction 533 549 -
29 g6958.t5 MobiDBLite mobidb-lite consensus disorder prediction 558 586 -
26 g6958.t5 MobiDBLite mobidb-lite consensus disorder prediction 693 731 -
25 g6958.t5 MobiDBLite mobidb-lite consensus disorder prediction 702 731 -
4 g6958.t5 PANTHER PTHR24075 SEC63 DOMAIN-CONTAINING 11 728 8.1E-156
5 g6958.t5 PANTHER PTHR24075:SF0 TRANSLOCATION PROTEIN SEC63 HOMOLOG 11 728 8.1E-156
6 g6958.t5 PRINTS PR00625 DnaJ domain signature 73 91 4.3E-7
7 g6958.t5 PRINTS PR00625 DnaJ domain signature 91 106 4.3E-7
3 g6958.t5 Pfam PF00226 DnaJ domain 71 129 2.1E-16
1 g6958.t5 Pfam PF02889 Sec63 Brl domain 204 441 1.0E-11
2 g6958.t5 Pfam PF02889 Sec63 Brl domain 604 684 1.6E-7
15 g6958.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 39 -
18 g6958.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 40 58 -
14 g6958.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 59 157 -
17 g6958.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 158 181 -
16 g6958.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 182 731 -
32 g6958.t5 ProSiteProfiles PS50076 dnaJ domain profile. 71 133 17.71
22 g6958.t5 SMART SM00271 dnaj_3 70 125 1.3E-18
23 g6958.t5 SMART SM00973 Sec63_2 191 686 2.2E-7
10 g6958.t5 SUPERFAMILY SSF46565 Chaperone J-domain 67 169 1.57E-23
9 g6958.t5 SUPERFAMILY SSF158702 Sec63 N-terminal domain-like 210 411 5.49E-35
8 g6958.t5 SUPERFAMILY SSF81296 E set domains 423 690 9.94E-25
20 g6958.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 39 58 -
21 g6958.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 159 181 -

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

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.

Raw TPM values