General information for g9369.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Tuberin.
Parent gene
- The parent gene g9369 is located on chr_1: 2284631..2285851 (- 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 | g9369 | g9369.t1 | isoform | g9369.t1 | 2279119 | 2284631 |
| chr_1 | g9369 | g9369.t1 | exon | g9369.t1.exon1 | 2279119 | 2279313 |
| chr_1 | g9369 | g9369.t1 | cds | g9369.t1.CDS1 | 2279119 | 2279313 |
| chr_1 | g9369 | g9369.t1 | exon | g9369.t1.exon2 | 2279372 | 2279542 |
| chr_1 | g9369 | g9369.t1 | cds | g9369.t1.CDS2 | 2279372 | 2279542 |
| chr_1 | g9369 | g9369.t1 | exon | g9369.t1.exon3 | 2279618 | 2279732 |
| chr_1 | g9369 | g9369.t1 | cds | g9369.t1.CDS3 | 2279618 | 2279732 |
| chr_1 | g9369 | g9369.t1 | exon | g9369.t1.exon4 | 2279788 | 2283343 |
| chr_1 | g9369 | g9369.t1 | cds | g9369.t1.CDS4 | 2279788 | 2283343 |
| chr_1 | g9369 | g9369.t1 | exon | g9369.t1.exon5 | 2283404 | 2284254 |
| chr_1 | g9369 | g9369.t1 | cds | g9369.t1.CDS5 | 2283404 | 2284254 |
| chr_1 | g9369 | g9369.t1 | exon | g9369.t1.exon6 | 2284322 | 2284386 |
| chr_1 | g9369 | g9369.t1 | cds | g9369.t1.CDS6 | 2284322 | 2284386 |
| chr_1 | g9369 | g9369.t1 | exon | g9369.t1.exon7 | 2284446 | 2284631 |
| chr_1 | g9369 | g9369.t1 | cds | g9369.t1.CDS7 | 2284446 | 2284631 |
| chr_1 | g9369 | g9369.t1 | TSS | g9369.t1 | NA | NA |
| chr_1 | g9369 | g9369.t1 | TTS | g9369.t1 | NA | NA |
Sequences
>g9369.t1 Gene=g9369 Length=5139
ATGAGTAAAAATCTAGACAAACTAAAGCAATTCTTTCGGCAAAATAAAGCGAGTGGAAGT
CAAGAAAGAGTACATGTTTTAACGACTGAACTTGAGAGAGATTTAAGAAAAGATAATTCT
CTTGAAAAAAGATTAAGATTGATCAAAGATTTAGGTGAAATTGTATTAGTAAATAGATTA
GAAGAGTTTGCTGTACAAAAATTATGGTCGCTTACAAATGATATGCTTGAAAATAAAGAT
CTCTATGTTCGTGAGGCAGCCTTTTCATTTTACACAAAGCTAATTCAAGGACAATACCGT
GATCTTGCAATAATGCGAGCACACTTCTTCAAGTTAGTCCAAAATCACAAGATTCCAGTT
GATTTGCATTCATGTTTACAAATGCTTAAAACTCTAACTGAAAATGGTAGAGATATACAG
AATTTCGAGGAAGAAATCGGCTCTTTCATGCTTGGTTGGATGGATCAAATTATTGAAGCT
CAGTTAACTGCTTCTTATTTGGATTTATTTGTTAACATCATCAAATACAATACTGCATAT
ATCGATAGAGAAATCATTATCAAAGTCGTACAAAGAGTATGCAATGATATTTGCTTTCAA
TTTCTTGATGATCGAGAAACGTTTCTTCAATGTCTAAATGTGATCGAAACTGTTATTTGC
TACAGCGTTTTTCCTAATGAAATTCTCTCTGCATGCATCATAGTGCTTTGTCGTGCTGTA
AACTTTGAGATGTATGTTGAACCATCTTATAAAATTATGAGAAATCTATTAGGAACACAA
TTGGGCTATGCTTCTCTTTTAATAATGTGCAATATGCTTAAAGAGAAAGCTTACTTTTCA
GATGCATATCTTTTGAGAGGTGCTGTTTTTCATACAAACATGAATTTATGGGGAGGAAAT
AATAGTTCATTGCAGAATGGTGTCAAATATAGTTCAGTTGTATTATCGAGCTATTGTGAA
GTTCTAGGATCCCGTTCAATTATCGTTACGTATGAGGTCATATTGAGTTTACAAACATTG
ATTGTCAAATGTGGTACTAACTTAAGTGAGCCATCATGGGATATAATTATTGAAACAATT
AATCGAATTTTAGACTATATTGATCAAGAAAAAATTGCAGATAATCATGATATAAGAATT
CGACTGCATACGGTTTTTGATAGTCTCGAGTCTCTAATAATTCATAATGAAAGTAATGTC
AATGTAAATATAGATAAAGTTTATGCAGTAATCGAGAGAATAAGTTACAAACGTCCGGAG
TCTTCAGTTTTAAATCTTTTAAATCATAAAGCATATAAACTTAACACAATGTCAACTGGA
TGGATCAAGAACTTGAACAATTTCATGGAACGATTTTATCGTAATGAAACAAATCAAACA
ATTAGACTAGCAACTATTGAACATTTAAAAGAATTTATCACGCTAAATCGTGCATGCTAT
GAAGAAGAAATTCTTGAGAAAGTCGTGATTGTAGTGTTTTCGGATATTGCACAAGAATCA
GATGTTAAAATTCGAGTTGCAGTATGCAAACTTTTACTAGAAATTTGTTCTCATTGTGAT
ACAAAAAGATGTTTAGAACTGTTAGATGTGCTTGAAAAGGTCATGAATCATCCGTTTGAT
GTTTTCTCATTAAACAACATTGCATTAAAGAGTGAACATGATTTTGAAGACTCAATTGTA
GTTGTTAATGGAATGATTGATTTGTTTTTAGAAAAATTGCATCAATTGCCAACAAATCAC
GCTATTAAAATTTATTATATTTTAATTACTCATTTGGAAACTCATTATCATCAACCGAAA
GTTTTTGAAAATGCAACAAAAATTCGTTATAGCATAATTAACTGGATGTTGAGAGTTCGT
GCAAATTCATCATTTCATATTGGTTATCCATCACCACGTTTGATTAGTGATAATATAAAA
TATAGTCATTATCTTGCAATTGAAGGTGAATTTCAACATCAACCGATGCCTTTACCGCAA
ACACCTAATATTGAGATTCAAAGTATAACTGAAGAAAAACCAGAACCTTGTTTTAATTTC
AATCTTACAACTCTATCGATCAAGAGAGGCTGTAAAATTATTGTTAAATGTCTCGATCAA
GAAAAAGATTGGCATACTGTTCAACTGGTGCTACGAGAACTTCCAAAGATTATGCAAAAT
AAAACACTTATACAAGGAAATGACGTTGATATTCTTGCAAAAACTCTTATTGAACTATTT
CGTATAAGCTATACAAAAGAAAAGCTTATGGAACGATTTACTGCTTTAAATGAACAAAAA
GATTTTCGCTCTTTAGTTATGCCTGCGATTGCTAGTCTCATTACTTATAATGCATTTCTC
GCTCCTACTACAAAGAAAAAAATTGTCGAGATTCTCAAATCGGAAGTTCGAATGGATGGT
TGTTTGAGCATTTGTGTACAAGCATTCACTATTTTATTGATGGAACGCTGTGATATTTTT
GAAAGACAACTTGCTGATATTGTTCTAGCAATTTCAAAAGTTTCTGACACAATGCACGTT
GCAATTCCGATTCTAGAATTCATATCAACCATCACACATTTGCCGTATTCATTTACAAAT
TTGAATCAAAAGCAATTCTCGTATGTATTTGCAACGTGCCTTCCCTATACTAGTCCCGCT
CGCTACGATCATTATGTGGTGTCATTAGCACATCATATTATTGCAAGTTGGTTCCTAAAA
TCGCGTCTTCAATGGCGTAAGCAATATGCGGATTATATTATAGAAGGTATTGCAAAGAAT
ATTGATAAATCTATGCAAGATGCAAAGCAACTGCAACGACAAGTTCAAGATGATGCAAAT
AAGGGATTTAATTTAGTCAATGAAGATTCTTCACTGAGAAAAAGGAGCTCAAGTTTGACA
GAACAATCTAATCGCAGGAAGGAAATTAATAATCCACAACTCATGAAAATGAAAGCTCAA
AGAGTCGCTTTACAAAATTTATCACCAAATTTTGATATGCATGGATTTCATATTGAATTA
ATAGAGACTTGTATTGATTTTATGGCTCGTCATACTTATTCTCTTTCACTGGCATTACCC
AGACGTTTGCCAAGTGCCAATTATCTTCTTCGCGGTGGTGGTCAATCAAAAACGTGGATC
TTGGGTCATGTTGTTATTACAGTTACTACAAATGCTTGTATGGATAATCACGATTATGCT
CGTTGTTCTTGTTATTACTCTGATTGGGCTGAAATAATTGTTCGACGACCAACTGGAATG
CTTTCTTGGATGATGAAATTTCAAAATCAAGTGGGAGCATTTGCAAATGAATTTTCATTT
TATGATCTGAAAGGATTATTTTCTGATTATGAATTAGATTGTGATAATCCAAATGGTATA
TTAGTAAGAAAGAAAATTGATGAATCATATTCAGATGAAGCAGCATTATTGATGGAAAAA
TTATCTATAAATGATGAATTTGGAAAGATTCCATTACAATCTACTGCCAGTGACTCTTCC
GTTTTGAATATTGTAACTCAACCAATTAATATACCAATAACAAAACCATCTGAATTAGAG
CAAGGTGTTCCTGAAGATGATATTTCTTATGATGACGATGATCCTGATGATCCTAAAAGA
AATCCAGTTCGAAGAGTCAATTCATCGCCTGAAATGAGATCAAATTGGAAGCATTCGAAA
CAAACACAAGCTCGCAATGAAAAAGATAGTAAATTAGGATCTAATTCTACAATCACAGAT
GAACAAGAGGACAAAAGTGTAATTGAATGTAGTGAAGTGCAACAAAAAAAGAAATTGAGT
TATTCGAAAGAAACAAAAGTAAGTTGTGAAGCAATACCAGAAGAAATTAGTACAATTGGT
CAAAAAGAAGAAACTTTAACTGTAGAAAAAAAACCTATTCAATTACTTACATCGATTTCT
GCTCAAGAATCTTCAAATGTCACTTCAGTTCCTAAAAAGCAGCACTCTGCTGATGACACT
ATTCAATTAAGAAGGTCTGATACAATTTCATCAGCTACAGTTGCTCAAGCAAATATAAAA
AACCAAGATTGGGCTTCAACTTCATCATCTAGTAATTTACCTCTTTCACCACGATATAAG
GCGTCTGTGAGTCGTCAAGTCAGCCATCAAGTACCATTAGAAAGTGGTGATGATGGTGGT
TATCGTGCACGTTCAAAAACAATATCGGTTATTGGACGTAATAAAGAACTTTTTGAAAAT
CAATCGAAGCCTGCGTCAGATTTTTCTACATCAACCTCATCAATTGAGCAATCCCAGCCA
ATTGCGACAGCAACTTCTGGAATTAATCCAAGCTTCGTTTTTGTTCAATTATTCAATACA
GGAAAAATTGATAGTGGTGGAGATAAGCCATTGCCTGTTTCTGAAAAACACATGGGAACA
TTGAATCTTTTAGATTTAATACCGCCCTATGAAATTCACAAAATTGGTGTAATTTATGTG
AAACCAGGTCAGGCAAATAGTGAGACAGAAATTCTTCGCAATACAAATGGGAGTTTAAGA
TATATGCAATTTCTGCAAAATCTTGGTACTCTCATTGCAATAAAAGATGCGAAAGAAAAG
AAACTTTTTGTTAATATGGAACCAAAACGAGAAGGAAATTATACATATGTTTGGCATGAT
GATATCATTCAAATGACTTTTCATGTTGCAACATTAATGCCAACACTTGAATCAGATCCA
AATTGTAATGAGAAAAAGAAATATATTGGAAATGATTTTGCAACTATTGTCTATAATGAA
AGCGGAGAAGATTACAATCTAAATACAATTAAAGGTCAATTTAATTATGCTTGCATAGTT
GTACAACCCTTAGAGATGGGATCAAATTTGATATCGATACGAGCAAAGGGTGATATTGAA
GAATATTTTAAGCATCATGAGCCAAAAGTTATTTCGGATCGAGGTGCTCCATTGTTAGCT
CGACAACTTGCCTTACATGCAAATATGGCATCATTAGTTTCAACTTCATTAAAAAATCCG
AAAATCCCATATGCAAACAACTGGCTAGAGCGATTAAGAAAAATCAAATTGCTTAAAACT
CGTATAGCAAAAGAATTAGATCAGCCAATTCAAACTACAACAGCATCTTCTATCTCAACG
ACTGCATTTTTGAAGGATGTTTTCACAAAATATACATAA
>g9369.t1 Gene=g9369 Length=1712
MSKNLDKLKQFFRQNKASGSQERVHVLTTELERDLRKDNSLEKRLRLIKDLGEIVLVNRL
EEFAVQKLWSLTNDMLENKDLYVREAAFSFYTKLIQGQYRDLAIMRAHFFKLVQNHKIPV
DLHSCLQMLKTLTENGRDIQNFEEEIGSFMLGWMDQIIEAQLTASYLDLFVNIIKYNTAY
IDREIIIKVVQRVCNDICFQFLDDRETFLQCLNVIETVICYSVFPNEILSACIIVLCRAV
NFEMYVEPSYKIMRNLLGTQLGYASLLIMCNMLKEKAYFSDAYLLRGAVFHTNMNLWGGN
NSSLQNGVKYSSVVLSSYCEVLGSRSIIVTYEVILSLQTLIVKCGTNLSEPSWDIIIETI
NRILDYIDQEKIADNHDIRIRLHTVFDSLESLIIHNESNVNVNIDKVYAVIERISYKRPE
SSVLNLLNHKAYKLNTMSTGWIKNLNNFMERFYRNETNQTIRLATIEHLKEFITLNRACY
EEEILEKVVIVVFSDIAQESDVKIRVAVCKLLLEICSHCDTKRCLELLDVLEKVMNHPFD
VFSLNNIALKSEHDFEDSIVVVNGMIDLFLEKLHQLPTNHAIKIYYILITHLETHYHQPK
VFENATKIRYSIINWMLRVRANSSFHIGYPSPRLISDNIKYSHYLAIEGEFQHQPMPLPQ
TPNIEIQSITEEKPEPCFNFNLTTLSIKRGCKIIVKCLDQEKDWHTVQLVLRELPKIMQN
KTLIQGNDVDILAKTLIELFRISYTKEKLMERFTALNEQKDFRSLVMPAIASLITYNAFL
APTTKKKIVEILKSEVRMDGCLSICVQAFTILLMERCDIFERQLADIVLAISKVSDTMHV
AIPILEFISTITHLPYSFTNLNQKQFSYVFATCLPYTSPARYDHYVVSLAHHIIASWFLK
SRLQWRKQYADYIIEGIAKNIDKSMQDAKQLQRQVQDDANKGFNLVNEDSSLRKRSSSLT
EQSNRRKEINNPQLMKMKAQRVALQNLSPNFDMHGFHIELIETCIDFMARHTYSLSLALP
RRLPSANYLLRGGGQSKTWILGHVVITVTTNACMDNHDYARCSCYYSDWAEIIVRRPTGM
LSWMMKFQNQVGAFANEFSFYDLKGLFSDYELDCDNPNGILVRKKIDESYSDEAALLMEK
LSINDEFGKIPLQSTASDSSVLNIVTQPINIPITKPSELEQGVPEDDISYDDDDPDDPKR
NPVRRVNSSPEMRSNWKHSKQTQARNEKDSKLGSNSTITDEQEDKSVIECSEVQQKKKLS
YSKETKVSCEAIPEEISTIGQKEETLTVEKKPIQLLTSISAQESSNVTSVPKKQHSADDT
IQLRRSDTISSATVAQANIKNQDWASTSSSSNLPLSPRYKASVSRQVSHQVPLESGDDGG
YRARSKTISVIGRNKELFENQSKPASDFSTSTSSIEQSQPIATATSGINPSFVFVQLFNT
GKIDSGGDKPLPVSEKHMGTLNLLDLIPPYEIHKIGVIYVKPGQANSETEILRNTNGSLR
YMQFLQNLGTLIAIKDAKEKKLFVNMEPKREGNYTYVWHDDIIQMTFHVATLMPTLESDP
NCNEKKKYIGNDFATIVYNESGEDYNLNTIKGQFNYACIVVQPLEMGSNLISIRAKGDIE
EYFKHHEPKVISDRGAPLLARQLALHANMASLVSTSLKNPKIPYANNWLERLRKIKLLKT
RIAKELDQPIQTTTASSISTTAFLKDVFTKYT
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 18 | g9369.t1 | Coils | Coil | Coil | 914 | 941 | - |
| 17 | g9369.t1 | Gene3D | G3DSA:3.40.50.11210 | - | 1471 | 1645 | 3.8E-44 |
| 24 | g9369.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1189 | 1244 | - |
| 4 | g9369.t1 | PANTHER | PTHR10063 | TUBERIN | 5 | 1685 | 2.2E-243 |
| 5 | g9369.t1 | PANTHER | PTHR10063:SF0 | TUBERIN | 5 | 1685 | 2.2E-243 |
| 6 | g9369.t1 | PRINTS | PR01431 | Tuberin signature | 153 | 176 | 3.6E-30 |
| 11 | g9369.t1 | PRINTS | PR01431 | Tuberin signature | 282 | 300 | 3.6E-30 |
| 12 | g9369.t1 | PRINTS | PR01431 | Tuberin signature | 347 | 367 | 3.6E-30 |
| 10 | g9369.t1 | PRINTS | PR01431 | Tuberin signature | 558 | 579 | 3.6E-30 |
| 13 | g9369.t1 | PRINTS | PR01431 | Tuberin signature | 600 | 625 | 3.6E-30 |
| 8 | g9369.t1 | PRINTS | PR01431 | Tuberin signature | 704 | 725 | 3.6E-30 |
| 9 | g9369.t1 | PRINTS | PR01431 | Tuberin signature | 839 | 859 | 3.6E-30 |
| 7 | g9369.t1 | PRINTS | PR01431 | Tuberin signature | 885 | 905 | 3.6E-30 |
| 3 | g9369.t1 | Pfam | PF11864 | Domain of unknown function (DUF3384) | 42 | 468 | 1.2E-67 |
| 1 | g9369.t1 | Pfam | PF03542 | Tuberin | 554 | 904 | 7.1E-111 |
| 2 | g9369.t1 | Pfam | PF02145 | Rap/ran-GAP | 1491 | 1675 | 3.7E-38 |
| 21 | g9369.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 764 | - |
| 23 | g9369.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 765 | 784 | - |
| 19 | g9369.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 785 | 795 | - |
| 22 | g9369.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 796 | 814 | - |
| 20 | g9369.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 815 | 1712 | - |
| 25 | g9369.t1 | ProSiteProfiles | PS50085 | Rap GTPase activating proteins domain profile. | 1461 | 1686 | 48.558 |
| 14 | g9369.t1 | SUPERFAMILY | SSF48371 | ARM repeat | 31 | 537 | 1.15E-11 |
| 15 | g9369.t1 | SUPERFAMILY | SSF48371 | ARM repeat | 455 | 901 | 9.4E-5 |
| 16 | g9369.t1 | SUPERFAMILY | SSF111347 | Rap/Ran-GAP | 1407 | 1685 | 3.27E-67 |
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:0032007 | negative regulation of TOR signaling | BP |
| GO:0033596 | TSC1-TSC2 complex | CC |
| GO:0005634 | nucleus | CC |
| GO:0043547 | positive regulation of GTPase activity | BP |
| GO:0051056 | regulation of small GTPase mediated signal transduction | BP |
| GO:0005096 | GTPase activator activity | MF |
KEGG
Orthology
- This transcript has been annotated with K07207 (tuberous sclerosis 2)
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.
