General information for g2022.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Hamartin.
Parent gene
- The parent gene g2022 is located on chr_3: 14558249..14562080 (- 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 | g2022 | g2022.t1 | TTS | g2022.t1 | 14558176 | 14558176 |
| chr_3 | g2022 | g2022.t1 | isoform | g2022.t1 | 14558249 | 14562080 |
| chr_3 | g2022 | g2022.t1 | exon | g2022.t1.exon1 | 14558249 | 14558490 |
| chr_3 | g2022 | g2022.t1 | cds | g2022.t1.CDS1 | 14558249 | 14558490 |
| chr_3 | g2022 | g2022.t1 | exon | g2022.t1.exon2 | 14558547 | 14558661 |
| chr_3 | g2022 | g2022.t1 | cds | g2022.t1.CDS2 | 14558547 | 14558661 |
| chr_3 | g2022 | g2022.t1 | exon | g2022.t1.exon3 | 14558720 | 14561293 |
| chr_3 | g2022 | g2022.t1 | cds | g2022.t1.CDS3 | 14558720 | 14561293 |
| chr_3 | g2022 | g2022.t1 | exon | g2022.t1.exon4 | 14561351 | 14561416 |
| chr_3 | g2022 | g2022.t1 | cds | g2022.t1.CDS4 | 14561351 | 14561416 |
| chr_3 | g2022 | g2022.t1 | exon | g2022.t1.exon5 | 14561591 | 14561787 |
| chr_3 | g2022 | g2022.t1 | cds | g2022.t1.CDS5 | 14561591 | 14561787 |
| chr_3 | g2022 | g2022.t1 | exon | g2022.t1.exon6 | 14561984 | 14562080 |
| chr_3 | g2022 | g2022.t1 | cds | g2022.t1.CDS6 | 14561984 | 14562080 |
| chr_3 | g2022 | g2022.t1 | TSS | g2022.t1 | 14562088 | 14562088 |
Sequences
>g2022.t1 Gene=g2022 Length=3291
ATGACTAATCCTTTAGAGCTGTTTGAAGAATTAGAGTCATTTAATGTGCAAAAGCAAGAG
AGTGCAAAACAAAAATTCGCCGAAGCTTTTGCTTCAACAAAGGAAAGCTGGATAATAAAT
GGAATGATTGATTATTATTCACAAACAAATTCATTTAGAATAGTTGAAGTTTTGGTGAGA
GTTCAAACACCACACGATATTAATATATTCAATAAACTTCAAAAATGTCTTCAAGAATCA
AATCCTAAACAAAAAACTGTGGCTCTTACACTTTTTGCTCACATTGTACGAAAGCATCCT
ACTTGGCTTTACAAAGTGGTTAGTCATGGTTTCTTAAAAGATTTATTAAAATTTCTCAGG
TATGAACGTGATGTTATAACACTCATTACTGGATTACTTTGCATAATTTCGTTATTGCCT
ATTATACCGACATCAATCAGCGCTTTTCTCACAGATCTATTTGAAATTTTCAATTATGTA
GCAACACTCACTTGTCAGCAATTAAATCTTACAGAATGTCATCTAACTTACCTTCAATAT
GGTTTATACATGCTTTTCAATCGACTTTATGGCATGTATCCATGCAATTTTATCGACTTT
ATTCGTAATGAATATATATTAAAGCCAGATAAAGCTATAATTTTTAATCATACAATAAGA
GGTCTACTCGATACTGTTAAAATTCACCCAAATCTAATAACATCAACAAAAATTAGCGAA
ACATCCACATCGAGATTTAAAAAAATGGAACCACATGATGTAGTTGTTGAATGTGTTAAA
TATTCTATTGATAATAATGAAAAATCGGCTACAAGTTGCTCATCAGGATTTTTGGACTGC
GAACATTTAAAACCTTTAGAATTTACACACTTAAGTGTCGAGCCTTTACCACCATTGCCA
GCCAAATATTATGCTAGTGCTAAATCAATCGAAAACAGATTTGAAAGTTTATGGACCCCT
TCACTTGTTGTTCAAGCTACTCCTCCGCCAACAGCTAATAACATTACAAATACACCCTCA
CAAACTCCTGTACCAATTGCACCAAATTATAACATCGCATTAGCTAACAAAAATACACAA
GAAGTGATATGTGACACTGACGATAGTACTCGTTTAGTTGAAGCTGCAATTGAAGCAACT
CCAGAACCAGAAATCGGAAATTCAAATTTTAGACCTTTTACTAGTACTTCACAAGCAGCT
CGTAATATTTGGCCAAAACCATCAAACACAAACTCTCAAGTTATCCATAATGTTAAAAAT
TCATCGACACCTTCATCACCACTTAGAAAAGAAGGAAAAGCACCTGATTATTCAATACCA
AATCATAAACTGATGAGAATTCTCTCAGATCGAGAACAACATGTGAGTAGTGCTACCGGT
GAACCAATAATGATTTCTCGTGAAGATCAAGAAGTTAATGATATTAATAACTTTAATTCA
AATAATGGCAATGATCAAGAAATAGATGCATACAGAAATATGGTGGACTATAATCAATCA
GATGAAGATGATGCAGATACTACTCCTCCATTGTATCAACGTGTCGACTATGTTCGAAAA
GTGAAGCGCCTTAGATTGTACAGTCATTGTATTTATAGTGCTGGAACATCTCCAGCTGAT
AGCATCAACTATATGCCTCGTATACCAAGCACATTTAGAATGAAACGATTCAATTCGTGG
CCTAATCTTAAATTTTCTGATGTTGTCATTAAGTCATCGAAATTTGATAAACAAAATGTT
AGTGATCCACAACAATCATCTTCAGATGAAGCGTTTAGTGCTGAATCACATTTCAATAAG
AGAGCTGTGCAAAATGGGGATTCTAGTGCAAGAAACGGAAGTATATTTAAAAAGATTCGG
GAAGATCTAAAGTCAAAACCACTTGAAATTTTACAGAAAGTATCAAGTGGCACACAAACT
TTAGAATACTGGCCTTCAGCTTCTGAATCAATGTTTTACAACATTTTTGAAAAAGAAATG
AAAAAGAAGCAGATTGAAAATGAAATAGTAACGTTGACACAAACGACAACAACTACCACA
ACCACTACACTTGCTAAGTCATCAACAGAAGCTTCAACTTCGGGAAATGTTGTCAATGCT
GCTAGTACATCACCTAATGAAATGATTGACCAATATATTCAAACATCATTAAAAAGGAAA
AACTCAAATGATTATCGTGATCATATCGAACTTTTAGCCATTCAATTACAATTTGAGAAA
CATCGTCGTGAAATTCATGCTGAAAGGAATCGACGATTATTAGGAAAGAGTAGAGCTATG
AGAGGACTTGAACAGTCAAATGCCACTCTCTCGGATCAGGTTGCTAAATTATCAGCAGAA
ATAAATTTAATCAATAGAAAATCAGCAGAAACGAGAAGCATTAATCAGAAAAGTTTAAAA
GATCTGGAGGAAAAAGCAAATTTTTGGGCGAAGAAATGTGCTGAAGAAAAGGAGAAAAAT
GTTCAATTGCAGAGAGAAAGAGATTCTTTGCAACTAATGATTGAAGATGAGGTGGCACAA
AAAAAGGAAGCTCTTAGCAAAATTGATGTGTTGAGTGCCGAAAACTTTGATCTTAAGAAT
TTGTATGAAGATGCCAAAGCAGAAGCAGAACGTGGTCAACAATATAGAGAACAATTGAAG
AAGCTAGAAGCAGACATGATAATATTCAATGAAGCAAGATTAAAATGTCAACAACAAATG
GATGAATTAAATGCTATTAAAGAGAGAGATGTTGAAATGGAAAATATTATACAAAGCTAT
AGTCAAGAAATTTTAGACATGAGACGCATTTTAGATTTTAAATCTTCTCAAATTGATGGA
ATGACCAAAAGAATGAATGATTATGAGCTTCAAATTCAAAAGAAAGATTCATCTCTGACA
GATCTTAAGCGTAAAATGGAGACAATCAAAGAAGTTTACGAAGAGAAATTTAAAGCTCTT
GAAGAAAAATACACTAACCAAAAGGCAATTATAATGAAAATGGAAGAGCATGCTTTAGAG
TTAAGTAAAAATCAACAGGGAATTACTTCACCAGAAAGTGATAAGACAGCAGATCTTTTA
GGGTACACATCACCATTATCAATATCGTTAGCTTCAAGTGATGGTCTATCGGTTTCATTG
CGTTCGACGACAGAATTAAGAGGTATTGGTATTCAACAAATAATGCAGCCATCAACATCA
GGGGTTTCTTCTTTAGAGCAGCAAGCACAACAACAACCTGTACTTCAGCGTCAGCAATCG
ATTCATGACGATTCAACGCTTAATCAGCCAATAAATTATAAGAAGAAATAA
>g2022.t1 Gene=g2022 Length=1096
MTNPLELFEELESFNVQKQESAKQKFAEAFASTKESWIINGMIDYYSQTNSFRIVEVLVR
VQTPHDINIFNKLQKCLQESNPKQKTVALTLFAHIVRKHPTWLYKVVSHGFLKDLLKFLR
YERDVITLITGLLCIISLLPIIPTSISAFLTDLFEIFNYVATLTCQQLNLTECHLTYLQY
GLYMLFNRLYGMYPCNFIDFIRNEYILKPDKAIIFNHTIRGLLDTVKIHPNLITSTKISE
TSTSRFKKMEPHDVVVECVKYSIDNNEKSATSCSSGFLDCEHLKPLEFTHLSVEPLPPLP
AKYYASAKSIENRFESLWTPSLVVQATPPPTANNITNTPSQTPVPIAPNYNIALANKNTQ
EVICDTDDSTRLVEAAIEATPEPEIGNSNFRPFTSTSQAARNIWPKPSNTNSQVIHNVKN
SSTPSSPLRKEGKAPDYSIPNHKLMRILSDREQHVSSATGEPIMISREDQEVNDINNFNS
NNGNDQEIDAYRNMVDYNQSDEDDADTTPPLYQRVDYVRKVKRLRLYSHCIYSAGTSPAD
SINYMPRIPSTFRMKRFNSWPNLKFSDVVIKSSKFDKQNVSDPQQSSSDEAFSAESHFNK
RAVQNGDSSARNGSIFKKIREDLKSKPLEILQKVSSGTQTLEYWPSASESMFYNIFEKEM
KKKQIENEIVTLTQTTTTTTTTTLAKSSTEASTSGNVVNAASTSPNEMIDQYIQTSLKRK
NSNDYRDHIELLAIQLQFEKHRREIHAERNRRLLGKSRAMRGLEQSNATLSDQVAKLSAE
INLINRKSAETRSINQKSLKDLEEKANFWAKKCAEEKEKNVQLQRERDSLQLMIEDEVAQ
KKEALSKIDVLSAENFDLKNLYEDAKAEAERGQQYREQLKKLEADMIIFNEARLKCQQQM
DELNAIKERDVEMENIIQSYSQEILDMRRILDFKSSQIDGMTKRMNDYELQIQKKDSSLT
DLKRKMETIKEVYEEKFKALEEKYTNQKAIIMKMEEHALELSKNQQGITSPESDKTADLL
GYTSPLSISLASSDGLSVSLRSTTELRGIGIQQIMQPSTSGVSSLEQQAQQQPVLQRQQS
IHDDSTLNQPINYKKK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g2022.t1 | Coils | Coil | Coil | 760 | 787 | - |
| 9 | g2022.t1 | Coils | Coil | Coil | 799 | 885 | - |
| 8 | g2022.t1 | Coils | Coil | Coil | 889 | 909 | - |
| 11 | g2022.t1 | Coils | Coil | Coil | 945 | 990 | - |
| 5 | g2022.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 576 | 609 | - |
| 6 | g2022.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1057 | 1088 | - |
| 7 | g2022.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1057 | 1096 | - |
| 2 | g2022.t1 | PANTHER | PTHR15154 | HAMARTIN | 3 | 1070 | 2.8E-150 |
| 1 | g2022.t1 | Pfam | PF04388 | Hamartin protein | 6 | 753 | 1.4E-124 |
| 12 | g2022.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 124 | - |
| 14 | g2022.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 125 | 150 | - |
| 13 | g2022.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 151 | 1096 | - |
| 4 | g2022.t1 | SUPERFAMILY | SSF48371 | ARM repeat | 52 | 158 | 2.97E-7 |
| 3 | g2022.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 125 | 147 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
KEGG
Orthology
- This transcript has been annotated with K07206 (tuberous sclerosis 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.
