General information for g2159.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Nuclear receptor corepressor 1.
Parent gene
- The parent gene g2159 is located on chr_3: 15711840..15725340 (+ 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 | g2159 | g2159.t1 | TSS | g2159.t1 | 15707869 | 15707869 |
| chr_3 | g2159 | g2159.t1 | isoform | g2159.t1 | 15708841 | 15725340 |
| chr_3 | g2159 | g2159.t1 | exon | g2159.t1.exon1 | 15708841 | 15709025 |
| chr_3 | g2159 | g2159.t1 | cds | g2159.t1.CDS1 | 15708841 | 15709025 |
| chr_3 | g2159 | g2159.t1 | exon | g2159.t1.exon2 | 15722218 | 15722347 |
| chr_3 | g2159 | g2159.t1 | cds | g2159.t1.CDS2 | 15722218 | 15722347 |
| chr_3 | g2159 | g2159.t1 | exon | g2159.t1.exon3 | 15722406 | 15723917 |
| chr_3 | g2159 | g2159.t1 | cds | g2159.t1.CDS3 | 15722406 | 15723917 |
| chr_3 | g2159 | g2159.t1 | exon | g2159.t1.exon4 | 15723983 | 15724228 |
| chr_3 | g2159 | g2159.t1 | cds | g2159.t1.CDS4 | 15723983 | 15724228 |
| chr_3 | g2159 | g2159.t1 | exon | g2159.t1.exon5 | 15724288 | 15725068 |
| chr_3 | g2159 | g2159.t1 | cds | g2159.t1.CDS5 | 15724288 | 15725068 |
| chr_3 | g2159 | g2159.t1 | exon | g2159.t1.exon6 | 15725132 | 15725198 |
| chr_3 | g2159 | g2159.t1 | cds | g2159.t1.CDS6 | 15725132 | 15725198 |
| chr_3 | g2159 | g2159.t1 | exon | g2159.t1.exon7 | 15725265 | 15725340 |
| chr_3 | g2159 | g2159.t1 | cds | g2159.t1.CDS7 | 15725265 | 15725340 |
| chr_3 | g2159 | g2159.t1 | TTS | g2159.t1 | NA | NA |
Sequences
>g2159.t1 Gene=g2159 Length=2997
ATGGAAGCAGCAATTCGGTCACATCAGGTTGGCACAGGCCAACAGTCAGCACAGCAGCCT
CAATCAGATTTGTCTGGTGTGCGAGGCTCAGCCGCGGCTGGACCACCACAACAACACCCG
CCACATTCTATGTCACAATATAGCCAGCCTAGAAGCAATGCTAGTGGAATCAGTGAAGTC
CATCGAACGTCTGCCACAAGTTCACCATATCAAATATCACATACGATCCCGCACACATAT
GTCGATCAGAGAAATCGAGTGCGACCAAATACATTTTCTGGTGCTTCTGCTAATTCTAAA
ACAAATTATAATTGGCAACCAAATGCACAGTTTGAGTATGCACCAAGAACGACACTACAC
CAGCCAACTAATTTTGTTAGTGCAAGTTATGCAGCAGCTCAAACTCATGGAGGCTTTGCA
CCACGTGTTTCAGTTTCAATACCGCAACAGCCTCCCTCACAACAGCCACAGAGCGTGCAA
AGCGCTCCGCGACAGCTCACTGAATATATTACAGCTAGCATTCGTGATAACGCAACGGCT
GCGGCACTTTTACAAGCGACACAAACTAATCAACAGCGACCTCAGCCCGATCCGGGAGGT
ACACAACAGCAGCAACAATCACAACAGCAAACACCGCCATCTATACAGCCCGCATATAAG
AAAATTAGACTTGGCGAGCCTTCACCTTATCAGCCACCACAAACGAATAGTCTACATCAT
CCTGCAGCAGCGCCTACTTCGATTCCTGTACGTTTGCATCATGCTCCAAGCTATGACAAA
TCTGGACAATCAATTCAATCAAATAGTCCAATTGTGGTGCAAGTTGCTTCGACACCGCGA
CTTCATCAAAATCCAATTGTTGGCGCCACTGCTGAAATTCAGTATCAGCCACAAAAACCA
CCACAGCAACAGCCTACGCATCAAATTCCAACTGCTGCATCACCTCAAGCTCCACAATCA
CAAAATCAACAACAGCCACCGCCTTCTCAACAATCACAGCAACAAAATCAACAACAGTCA
CAATCACAAGCACCAAATGCTGCAAATTCAAATACAAAAGTCCTATCTGTGCTAAAAATC
GATACTCGTGATCCACTGATAACTGGCAGTGGCATTGTTGGCAGTGCTAGCAGTAATAAT
AACAATAGTAATAATGTAGGCGGTTATCATCCAAAAACGGAAGCAATTTCGCCCGCGGGA
TCACCAAAGTTATCAAAAGACGACTTGCTACAACAAATTAGCAGTGTTGATTCAAGTATG
ATGTCGTTGGAAGAAAGAAAAAGAAGTCTGAAAGAGAAAGAGCGCACACTGCTAGAGCAA
AAGGATGAAGGAATGTCAATTGAAGTTCCAGAAGTTCCATTCACTCATCGTACCCTTGCA
CAACAGATTTATGCTGAGAATAAAAAGAAGGCAAATGACAGTCATGCCATCCTCACTGCA
CTCAATTTCAAGGGTCAAACATTCGAACTGCCACTATACAATCAACCATCAGATGCGGAC
GTTTGTCGAAAAATTCACGAGCATTATTTGACATTTCGGTCGAGTCTGCTGTTGCATTTA
AGAAAAATTAAGTCTGAGCGCGCACAGCGCAATCAGGAGCTTGCTGATAAATATGCAAAG
CTCTCGATCGAATGGCAAAAGCGAGTAGAAAAAATTGAATCAAGTATAAAACGCAAAAAT
CGAGAATTCAAAAATCGTGAACTCTTTGAGAAAGTGTTTGTTGAATTAAGAAAGCAACGC
GAGGATAAAGAACGATTTAATCGTGTTGGCTCGCGTGTAAAGTCAGAAGCTGACTTTGAG
GTGATTGTTGATGGACTTCAAGAACAGGCACAAGAAGATAAGAAAATGAGATCATATGCA
GTCATACCCCCCATCATGTTTGACGCTCGTCAACGACGTCTTGTCTTCCAAAATGATAAT
GGCTCGCATGTCGATATGGAGGCTGAATTAAGCGCATATAAGACATTGAATCTCTGGACG
ACTGGCGAAAAGGAAATTTTCCGTGATAAATATGTACAGCAAGCGAAAAACTTTGGTTTT
ATCGCAAGCAATTTAGAGAGGAAAAATGCACAAGACTGTGTTCGTTACTACTACCTCAGC
AAGAAAGATGTCAAATATAAGCAGCTGTTAAGAAAGTCAAGTAAACGAACACGAAGTACG
AAGAACCTTCCGAAAACAAGCGAAAGTCAATCGCTGCTTGATCTGATGACAACTGGTGTC
ACGACGAGACTTCAACGTAAATCACGTAGCACAACTAGTCGACCCTCAAATAATTCATCA
TCAGCCGCTGCATCAGCTGCTGAGAGTCAGACAACAAACAGCAATTCAGCTGCACGATCA
TCATCAACAACTACTGTGACATCAGCACCTTTGCCAACTGTCACAGTGACTGTGTCGGGC
AATATGAAAAGTGAAGAGCCTGAAAATGAGAATGATCCGTTGGGCATGACTGAAACTACA
TCGCCATCACCAGCATCAAATACAATCAATAATAATAGCAACGCAAATAATAACAATTCG
AGGCGTGCAAGCAGTAATGGAAATGTAGATACTACGTCATCAGCAGTAACTGCAACGACG
ACGTCTACAACAAATGCATCATTCCTTCCCGCAAATATTAAAACTGAACCAGACGGTGAC
GTTGTGATGAAGACTGAGTCAGATAGTAATTCAAATAATTGGTCAACGCATCCACTGAAT
GGTCTCAAACATGAAATTAAAACTGAGGAAATTAAAATGGAAGGAAAGGCTGTTAATGAT
GAAAATAACACAATTAAGAAGGATGAAATTATTAAGGATGAAAAGAAAATTGACATTAAA
AAAGAACCCAATGATGATAAAGAAAATGATGAAGGAAAAAGTAAAAAATCTACACCAATG
GATGTTGATGATGAAAATAGTTGGAATAGCTCTGAACCAAGCAGTGCCAAGAAGCGTAGA
ATTGATGATAGTGGTACAAATGAATTAGGTAAGAACAAAAGAATTTTTATTATTTGA
>g2159.t1 Gene=g2159 Length=998
MEAAIRSHQVGTGQQSAQQPQSDLSGVRGSAAAGPPQQHPPHSMSQYSQPRSNASGISEV
HRTSATSSPYQISHTIPHTYVDQRNRVRPNTFSGASANSKTNYNWQPNAQFEYAPRTTLH
QPTNFVSASYAAAQTHGGFAPRVSVSIPQQPPSQQPQSVQSAPRQLTEYITASIRDNATA
AALLQATQTNQQRPQPDPGGTQQQQQSQQQTPPSIQPAYKKIRLGEPSPYQPPQTNSLHH
PAAAPTSIPVRLHHAPSYDKSGQSIQSNSPIVVQVASTPRLHQNPIVGATAEIQYQPQKP
PQQQPTHQIPTAASPQAPQSQNQQQPPPSQQSQQQNQQQSQSQAPNAANSNTKVLSVLKI
DTRDPLITGSGIVGSASSNNNNSNNVGGYHPKTEAISPAGSPKLSKDDLLQQISSVDSSM
MSLEERKRSLKEKERTLLEQKDEGMSIEVPEVPFTHRTLAQQIYAENKKKANDSHAILTA
LNFKGQTFELPLYNQPSDADVCRKIHEHYLTFRSSLLLHLRKIKSERAQRNQELADKYAK
LSIEWQKRVEKIESSIKRKNREFKNRELFEKVFVELRKQREDKERFNRVGSRVKSEADFE
VIVDGLQEQAQEDKKMRSYAVIPPIMFDARQRRLVFQNDNGSHVDMEAELSAYKTLNLWT
TGEKEIFRDKYVQQAKNFGFIASNLERKNAQDCVRYYYLSKKDVKYKQLLRKSSKRTRST
KNLPKTSESQSLLDLMTTGVTTRLQRKSRSTTSRPSNNSSSAAASAAESQTTNSNSAARS
SSTTTVTSAPLPTVTVTVSGNMKSEEPENENDPLGMTETTSPSPASNTINNNSNANNNNS
RRASSNGNVDTTSSAVTATTTSTTNASFLPANIKTEPDGDVVMKTESDSNSNNWSTHPLN
GLKHEIKTEEIKMEGKAVNDENNTIKKDEIIKDEKKIDIKKEPNDDKENDEGKSKKSTPM
DVDDENSWNSSEPSSAKKRRIDDSGTNELGKNKRIFII
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 19 | g2159.t1 | CDD | cd00167 | SANT | 659 | 698 | 0.00485878 |
| 17 | g2159.t1 | Coils | Coil | Coil | 413 | 443 | - |
| 16 | g2159.t1 | Gene3D | G3DSA:1.10.10.60 | - | 635 | 707 | 8.6E-21 |
| 8 | g2159.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 85 | - |
| 15 | g2159.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 8 | 26 | - |
| 7 | g2159.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 39 | 85 | - |
| 10 | g2159.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 188 | 214 | - |
| 12 | g2159.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 297 | 351 | - |
| 14 | g2159.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 711 | 899 | - |
| 13 | g2159.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 723 | 804 | - |
| 4 | g2159.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 813 | 871 | - |
| 11 | g2159.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 884 | 899 | - |
| 6 | g2159.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 915 | 998 | - |
| 9 | g2159.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 915 | 962 | - |
| 5 | g2159.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 975 | 989 | - |
| 1 | g2159.t1 | PANTHER | PTHR13992 | NUCLEAR RECEPTOR CO-REPRESSOR RELATED NCOR | 400 | 722 | 4.8E-74 |
| 2 | g2159.t1 | PANTHER | PTHR13992:SF5 | NUCLEAR RECEPTOR COREPRESSOR 1-RELATED | 400 | 722 | 4.8E-74 |
| 18 | g2159.t1 | ProSiteProfiles | PS51293 | SANT domain profile. | 654 | 705 | 12.013 |
| 3 | g2159.t1 | SUPERFAMILY | SSF46689 | Homeodomain-like | 653 | 706 | 2.43E-9 |
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 K04650 (nuclear receptor co-repressor 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.
