General information for g2437.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Golgi apparatus protein 1.
Parent gene
- The parent gene g2437 is located on chr_3: 18002433..18004111 (+ 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 | g2437 | g2437.t1 | TSS | g2437.t1 | 17998728 | 17998728 |
| chr_3 | g2437 | g2437.t1 | isoform | g2437.t1 | 17998857 | 18002433 |
| chr_3 | g2437 | g2437.t1 | exon | g2437.t1.exon1 | 17998857 | 17998915 |
| chr_3 | g2437 | g2437.t1 | cds | g2437.t1.CDS1 | 17998857 | 17998915 |
| chr_3 | g2437 | g2437.t1 | exon | g2437.t1.exon2 | 17998975 | 18000933 |
| chr_3 | g2437 | g2437.t1 | cds | g2437.t1.CDS2 | 17998975 | 18000933 |
| chr_3 | g2437 | g2437.t1 | exon | g2437.t1.exon3 | 18000992 | 18001223 |
| chr_3 | g2437 | g2437.t1 | cds | g2437.t1.CDS3 | 18000992 | 18001223 |
| chr_3 | g2437 | g2437.t1 | exon | g2437.t1.exon4 | 18001289 | 18002027 |
| chr_3 | g2437 | g2437.t1 | cds | g2437.t1.CDS4 | 18001289 | 18002027 |
| chr_3 | g2437 | g2437.t1 | exon | g2437.t1.exon5 | 18002084 | 18002196 |
| chr_3 | g2437 | g2437.t1 | cds | g2437.t1.CDS5 | 18002084 | 18002196 |
| chr_3 | g2437 | g2437.t1 | exon | g2437.t1.exon6 | 18002263 | 18002433 |
| chr_3 | g2437 | g2437.t1 | cds | g2437.t1.CDS6 | 18002263 | 18002433 |
| chr_3 | g2437 | g2437.t1 | TTS | g2437.t1 | NA | NA |
Sequences
>g2437.t1 Gene=g2437 Length=3273
ATGTACAAATTGCTGGTTTTATTATTGAATTTTTCATTTTTATCTTACGCCGATGACAAA
ATAAAAAGTCAAAATTTGCTTGAAGATCCTGCATGTCCACAACTTAAAAATCTTTGTAGC
AATTTATCGAATAATAGTGAAAATTTATTGGTGCTTGAATGTATTGACACGTTTCAGACA
TCAGAATATGACCTGAACATCGATTCACAGTGTCAACATGCAATTTATTCAAAGAAGCTT
GAACTAATGAATGATAAAAATGTTCACAGTTTACTCGAGCGAAGCTGCAAAGATATTGAG
GTGTTGAATACTTATTGCCAGCCTGATAGTAAAGAGTACTCTGGAAAGTACTTATCATGT
GTACTGGACAATCGAGACATAATAAAAGACTTAATTTGTAAGGGACAAATTCAGCGCATT
GAAACAGTTGCATTCAGTGACTTTCGACTTATTTCTAAATTTCTCACAAGTTGTTCAAAT
GATATCGAAAAAAGCAACTGTGGAAGACTGACGAAAAACTCAAAATCAACTCAAGGCGAT
ACACTTTCTTGTTTACAAATGCAAATTTCACAACTTTCAGATAATTGCAAGAAAGAAATT
TATCATATTTCTGAATTACAAGCTGACAATATAAAATTCGATCGACAAACGTATATGGCA
TGCAATAATGATGTGAAAAAATTCTGTTCAGACATGCGAGGCTACGAAATTTACAAATGT
CTCATGAAGAATAAAAATTCACAGCAAATGTCTAAAAAGTGTGAAAGTCAATTAAACAGA
CGATCTTCATTGATGGGACAAGACTATCGTATAAGTCGCGGACTTGCAAAAGCATGTAAA
GAAGATATAAAACTTAATCATTGTAGAAAAGGCACAAGCGATGATAAAGACATTAGATTA
GCTCAGATTTTACTGTGTTTAGAAGCTGCTCATAAAAATAACTCAAAATTATTGCCTGAT
TGTCTTGCTGAGATTTTTGATCATCGAAAAATGTTGATGGAAGATTACAAACTTTCACCT
GAAATTATAATTGACTGTTCTGAAGAATTGACGAGATTTTGCACAAATACTGAAGGTTCA
CAAACAATTCATTGTCTAATGGATCATGCAAAACCAAGAAAAAAGAAGGAATTGAGAGTT
TCAGCACAATGTTTGAGAGCAGTTGAAAATTTAATAAAGGTCACAGATGTCTCTGAAGAT
TGGAGAGTTGATCCAGTTTTGAGAAAAGCATGCAAACCAGTTGTCGATCAAGTATGTGGT
AATGATGTGGAAGGAAATTCAAGAGTTATGAGTTGTCTTATGGAGAAATTAGGAACAAAA
TATATGGCAGGTCCGTGTGAAGCTGCACTTTTGCAAATTCAGTACTTTACGGCTAGAGAC
TTTAAACTTGATGCAATGCTTTATTCGCAATGTAAAGAGGATGCAATTAAATTTTGCCAT
GCAAAAAAGACATGGGCAGATGTGAATGATAATCAAATGGATCCCGAGCGAGGACCAATT
ATTTTGCCTTGCTTATATCGCTATGCTTATCATCCTGATCCAAAAATGCAATTAACACAA
AATTGCTTCACAGAAATCAAAAGAGTTATGAGAGAAAGAGCAGTTTCAGTTGATCTCATT
CCAGAAGTTGAAGATGTCTGTTTAGATGATTTAGCAGAATTTTGTTTTGACAAGACACAA
AAGGGAGAAGAAATGGAATGTTTGCAGCAACATTTAGAAGAATTAACAAAAGAATGCAAA
AAAGCAGTAACAAGTTATACTGAGGAAGAGTCAGCACATATAGAACTCAATCCACTTATT
CGATCAGCGTGTAGTGATGCATTAGAAAAATATTGTGGAAATATTATGGCGGGTCGAGAG
GATGGCGACGTAATGGAATGTTTGATTTCACTTAAAAATGACGTTTTAAAACAAAACATC
AAGTGTCGTGCAGCAATTGAACATTTTCAATTGATATCACTAAAAAACTATGTGTTTACT
CACAAATTTAAAGAAGCGTGTAAGCCATACGTTAATAGATATTGTCCAAATAGTAGCACT
AAATACGATGTTATTGCATGTCTTAGTGAAATTATGACAAAAGATACCATAAAAGATCAC
AAACATTCACTACCTAAAGATTGTCGAATGCAAGTTCGCTCTCAACTTCTTCAGCAACGC
GAAAATATTGATTTTGATCCAAAATTAAAGAACACATGCAAAAAAGACATTGAAACTTTT
TGTTATAAAGTCGATAAAGACTTTGGTCAAGTTCTCGAATGTTTAACAAGCAATCAAAAT
AAATTAAGCACTAACTGTAAGCATGCTGTTTTTGCGATAAAAAAATCGGAATTGACTGAC
AGCAAAACTGATTTCGCACTAATGACTACGTGCAAAGGCATGTTGAAGCAATATTGCGAG
AATATCGATGATGCAAATGTACTGAAATGCTTAAAACTTCATAAAGATGAAAATATGTTT
GATAAGAAATGCCACATGATTGTCGTCAACCGACTAATTTTACAGAATCAAGATTATAGA
TTTAATCCCGATTTGCAACAAGCATGTTCAAAAGATATTGCAGATTATTGCACAAGAATT
ATTGTTGAAGCCAAAGAAAATGAAGAAATGAACGGAAAAGTAATAAATTGCCTCAAACAA
AAATTCAGAGAAGGGAAATTACAAACGAAATGTGAAAAACAAATGACAGTGATTCTACAC
GATCAAGCACTTAATTATAAACTGAATCCACTTTTAGCAGCAGTATGCAAATCAGAAATT
GATATTTTATGTCGTATGGATGATGAAAATGATGAAGAGGGACAAGTAGAAGAATGTCTA
AAACGTCAATTTATTGAGAAGAAAATTATTACGAAAGAATGTAAAGTTGAGATTGCAACA
TTGATTCAAGAAGCCAAAGCTGATATTCATGTTGATCCAATTCTTCTAAAAGCATGCACA
GTTGATTTATTAAAATATTGTTCAAATGTTGAAAGTGGAAATGGAAGACAACTTAAATGT
CTGCAAATAATTTTAAACGATGAAACGAAATCAAAAGCACTTGAAGATGATTGTAGAGAA
AAATTACAACAAAGAGTTGAAATGTTTAATAATGCGGCAGCAGTAATGCCACAACCTGAA
AGTTTTCAAGATCTTTATGAAACAGTTTCAAATTCGCCCGCAAGAAAGTATTTCATGATT
GTGATGTTCACATTTGTAGGATTTATTTTCATCATTGGACTATTCTTCGGCCGTGTTACT
AATAAAAGATATACAGCACTGAAAAATAAGTGA
>g2437.t1 Gene=g2437 Length=1090
MYKLLVLLLNFSFLSYADDKIKSQNLLEDPACPQLKNLCSNLSNNSENLLVLECIDTFQT
SEYDLNIDSQCQHAIYSKKLELMNDKNVHSLLERSCKDIEVLNTYCQPDSKEYSGKYLSC
VLDNRDIIKDLICKGQIQRIETVAFSDFRLISKFLTSCSNDIEKSNCGRLTKNSKSTQGD
TLSCLQMQISQLSDNCKKEIYHISELQADNIKFDRQTYMACNNDVKKFCSDMRGYEIYKC
LMKNKNSQQMSKKCESQLNRRSSLMGQDYRISRGLAKACKEDIKLNHCRKGTSDDKDIRL
AQILLCLEAAHKNNSKLLPDCLAEIFDHRKMLMEDYKLSPEIIIDCSEELTRFCTNTEGS
QTIHCLMDHAKPRKKKELRVSAQCLRAVENLIKVTDVSEDWRVDPVLRKACKPVVDQVCG
NDVEGNSRVMSCLMEKLGTKYMAGPCEAALLQIQYFTARDFKLDAMLYSQCKEDAIKFCH
AKKTWADVNDNQMDPERGPIILPCLYRYAYHPDPKMQLTQNCFTEIKRVMRERAVSVDLI
PEVEDVCLDDLAEFCFDKTQKGEEMECLQQHLEELTKECKKAVTSYTEEESAHIELNPLI
RSACSDALEKYCGNIMAGREDGDVMECLISLKNDVLKQNIKCRAAIEHFQLISLKNYVFT
HKFKEACKPYVNRYCPNSSTKYDVIACLSEIMTKDTIKDHKHSLPKDCRMQVRSQLLQQR
ENIDFDPKLKNTCKKDIETFCYKVDKDFGQVLECLTSNQNKLSTNCKHAVFAIKKSELTD
SKTDFALMTTCKGMLKQYCENIDDANVLKCLKLHKDENMFDKKCHMIVVNRLILQNQDYR
FNPDLQQACSKDIADYCTRIIVEAKENEEMNGKVINCLKQKFREGKLQTKCEKQMTVILH
DQALNYKLNPLLAAVCKSEIDILCRMDDENDEEGQVEECLKRQFIEKKIITKECKVEIAT
LIQEAKADIHVDPILLKACTVDLLKYCSNVESGNGRQLKCLQIILNDETKSKALEDDCRE
KLQQRVEMFNNAAAVMPQPESFQDLYETVSNSPARKYFMIVMFTFVGFIFIIGLFFGRVT
NKRYTALKNK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 17 | g2437.t1 | Coils | Coil | Coil | 558 | 592 | - |
| 15 | g2437.t1 | PANTHER | PTHR11884 | SELECTIN LIGAND RELATED | 20 | 1090 | 0.0 |
| 14 | g2437.t1 | Pfam | PF00839 | Cysteine rich repeat | 133 | 191 | 2.7E-10 |
| 11 | g2437.t1 | Pfam | PF00839 | Cysteine rich repeat | 194 | 248 | 1.7E-10 |
| 5 | g2437.t1 | Pfam | PF00839 | Cysteine rich repeat | 253 | 313 | 4.6E-10 |
| 4 | g2437.t1 | Pfam | PF00839 | Cysteine rich repeat | 319 | 371 | 8.6E-12 |
| 12 | g2437.t1 | Pfam | PF00839 | Cysteine rich repeat | 383 | 438 | 2.4E-11 |
| 7 | g2437.t1 | Pfam | PF00839 | Cysteine rich repeat | 445 | 511 | 8.5E-11 |
| 2 | g2437.t1 | Pfam | PF00839 | Cysteine rich repeat | 521 | 575 | 9.1E-9 |
| 6 | g2437.t1 | Pfam | PF00839 | Cysteine rich repeat | 577 | 634 | 1.8E-11 |
| 3 | g2437.t1 | Pfam | PF00839 | Cysteine rich repeat | 641 | 692 | 4.1E-8 |
| 9 | g2437.t1 | Pfam | PF00839 | Cysteine rich repeat | 706 | 761 | 9.0E-12 |
| 1 | g2437.t1 | Pfam | PF00839 | Cysteine rich repeat | 765 | 817 | 5.2E-9 |
| 13 | g2437.t1 | Pfam | PF00839 | Cysteine rich repeat | 823 | 885 | 1.6E-14 |
| 8 | g2437.t1 | Pfam | PF00839 | Cysteine rich repeat | 890 | 946 | 6.0E-10 |
| 10 | g2437.t1 | Pfam | PF00839 | Cysteine rich repeat | 952 | 1008 | 1.2E-11 |
| 20 | g2437.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 17 | - |
| 21 | g2437.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 3 | - |
| 22 | g2437.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 4 | 13 | - |
| 24 | g2437.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 14 | 17 | - |
| 19 | g2437.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 18 | 1056 | - |
| 23 | g2437.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 1057 | 1080 | - |
| 18 | g2437.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1081 | 1090 | - |
| 28 | g2437.t1 | ProSiteProfiles | PS51289 | Cysteine-rich GLG1 repeat profile. | 66 | 129 | 9.843 |
| 37 | g2437.t1 | ProSiteProfiles | PS51289 | Cysteine-rich GLG1 repeat profile. | 133 | 186 | 6.581 |
| 38 | g2437.t1 | ProSiteProfiles | PS51289 | Cysteine-rich GLG1 repeat profile. | 191 | 249 | 15.482 |
| 29 | g2437.t1 | ProSiteProfiles | PS51289 | Cysteine-rich GLG1 repeat profile. | 250 | 315 | 10.322 |
| 33 | g2437.t1 | ProSiteProfiles | PS51289 | Cysteine-rich GLG1 repeat profile. | 316 | 374 | 15.018 |
| 40 | g2437.t1 | ProSiteProfiles | PS51289 | Cysteine-rich GLG1 repeat profile. | 379 | 441 | 14.61 |
| 30 | g2437.t1 | ProSiteProfiles | PS51289 | Cysteine-rich GLG1 repeat profile. | 446 | 513 | 9.197 |
| 41 | g2437.t1 | ProSiteProfiles | PS51289 | Cysteine-rich GLG1 repeat profile. | 517 | 573 | 9.59 |
| 39 | g2437.t1 | ProSiteProfiles | PS51289 | Cysteine-rich GLG1 repeat profile. | 574 | 636 | 13.471 |
| 35 | g2437.t1 | ProSiteProfiles | PS51289 | Cysteine-rich GLG1 repeat profile. | 637 | 696 | 12.318 |
| 34 | g2437.t1 | ProSiteProfiles | PS51289 | Cysteine-rich GLG1 repeat profile. | 703 | 763 | 13.752 |
| 27 | g2437.t1 | ProSiteProfiles | PS51289 | Cysteine-rich GLG1 repeat profile. | 765 | 817 | 7.566 |
| 31 | g2437.t1 | ProSiteProfiles | PS51289 | Cysteine-rich GLG1 repeat profile. | 819 | 886 | 13.541 |
| 36 | g2437.t1 | ProSiteProfiles | PS51289 | Cysteine-rich GLG1 repeat profile. | 887 | 948 | 10.223 |
| 32 | g2437.t1 | ProSiteProfiles | PS51289 | Cysteine-rich GLG1 repeat profile. | 949 | 1009 | 14.132 |
| 16 | g2437.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 17 | - |
| 25 | g2437.t1 | SignalP_GRAM_NEGATIVE | SignalP-noTM | SignalP-noTM | 1 | 17 | - |
| 26 | g2437.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 1057 | 1079 | - |
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:0016020 | membrane | CC |
| GO:0000139 | Golgi membrane | CC |
KEGG
Orthology
- This transcript has been annotated with K06816 (golgi apparatus protein 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.
