Gene loci information

Transcript annotation

  • This transcript has been annotated as C-terminal-binding 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_3 g2029 g2029.t4 isoform g2029.t4 14576878 14586688
chr_3 g2029 g2029.t4 exon g2029.t4.exon1 14576878 14577319
chr_3 g2029 g2029.t4 TTS g2029.t4 14576881 14576881
chr_3 g2029 g2029.t4 cds g2029.t4.CDS1 14577254 14577319
chr_3 g2029 g2029.t4 exon g2029.t4.exon2 14577390 14577574
chr_3 g2029 g2029.t4 cds g2029.t4.CDS2 14577390 14577574
chr_3 g2029 g2029.t4 exon g2029.t4.exon3 14577821 14578019
chr_3 g2029 g2029.t4 cds g2029.t4.CDS3 14577821 14578019
chr_3 g2029 g2029.t4 exon g2029.t4.exon4 14578147 14578278
chr_3 g2029 g2029.t4 cds g2029.t4.CDS4 14578147 14578278
chr_3 g2029 g2029.t4 exon g2029.t4.exon5 14578371 14578631
chr_3 g2029 g2029.t4 cds g2029.t4.CDS5 14578371 14578631
chr_3 g2029 g2029.t4 exon g2029.t4.exon6 14578701 14579006
chr_3 g2029 g2029.t4 cds g2029.t4.CDS6 14578701 14579006
chr_3 g2029 g2029.t4 exon g2029.t4.exon7 14579068 14579617
chr_3 g2029 g2029.t4 cds g2029.t4.CDS7 14579068 14579253
chr_3 g2029 g2029.t4 exon g2029.t4.exon8 14583257 14583322
chr_3 g2029 g2029.t4 exon g2029.t4.exon9 14586208 14586688
chr_3 g2029 g2029.t4 TSS g2029.t4 14586695 14586695

Sequences

>g2029.t4 Gene=g2029 Length=2622
TTTCTTCAATTTTGGCGTTCATCGCGTCGAGCGAAAAAAATTCTATAATTCATCAGAAAA
CATAATCGCATGTGGATAAAATGAGTATAATTTCACTTCTTGCACTCTAATACATCAAGT
AGTGATAAATAATAGTGCAAAGAGTCTGTATTTCACGCTAAAATAATAATAAATAAAAAA
GTGAAATTCTCGAGATCATAAAAAGAGGAATTCCATAAAAAAAGCTAGAAGTCGGCAAAA
TAAGCAATTTTGAATAGTAAATTTTAAATCACATTAAGCGAAAAGAAAAAGTAAATTTAA
CCTAGTGCTGCTTGAGTTTAAATCAAAAATTGATTTACTGAAAGCATCGAAACTTGAAAG
TGAATAAGAAGAAGTTGAAAAAGAGAGAAAAAAATTCAATTGTGTGCGGCACAACATCTA
AAATTGGATATTATTCTTTACGTATATATTTTTGAAATAAAGAGATATTTATAATCTTTG
GGGATTTTCGTTAACTGCATTAAAGAGTGAAAAAGTAATATTTGAATGATGATTGGCAAT
ATAAAATCTCCCCAATGCAGTCAACATGAAACGTGAAAAGTGATTTTTATTTTTTTTTTT
TGTTTTTCTTTCGCAAGCATGTCATTAACTTAAATCCTCAAGGATAAAAAACACTGTAGT
GATAAATTTCATTGAACACTCTCTAACAAGTATAAGAAGCAGACGACGACGAATAATTGA
ATCGAGCCGATACTTTAGTGAATAAAAAAAAGAAAAAAAAGTTATTGTTGTGTAAAGTTT
TTTAAGAAAAGAAGCAACTTGCAAGAGAGAGAGGGAGAGAAGCAACTTTAATTAATATAA
ATATATCTTAAACAAGTGCTTAGTGATAAAAAAGTAATACATAAATTTTATATACAAATA
ACAAAAGAAAGATGTTGCCAAAACGTCCACGACTTGATGCCGTTCGCGGCCCAATATCAT
CGAACGGTCCTCTGCAATCGCGGCCCCTTGTAGCTTTATTAGATGGTAGAGATTGCTCCA
TTGAAATGCCAATACTAAAAGATGTTGCAACAGTTGCATTTTGTGATGCTCAGAGTACGT
CTGAAATTCATGAAAAAGTATTAAATGAAGCCGTTGGTGCTTTGATGTGGCATACAATAA
TTTTAACGAAAGAAGATCTCGAGAAATTCAAAGCACTTCGAATTATTGTTCGCATTGGTA
GTGGTGTAGACAATATTGATGTTAAAGCGGCTGGTGAATTGGGAATAGCTGTTTGTAATG
TGCCCGGCTATGGCGTCGAAGAAGTGGCAGACACGACGCTCTGTCTCATCCTAAATCTCT
ACCGAAGAACCTATTGGCTAGCGAATATGGTTCGTGAAGGAAAGAAATTCACAGGTCCCG
AACAAGTCCGAGATGCAGCACAAGGCTGTGCAAGAATACGTGGCGACACATTGGGTATTG
TTGGTCTTGGACGTATAGGCAGTGCAGTCGCGTTAAGAGCGAAAGCATTTGGCTTTAATG
TCAGTTTCTATGATCCTTATTTACCAGATGGCATTGAAAAATCTTTAGGTCTAAATCGTG
TCTATACACTTCAAGAACTACTCTTCCACTCTGACTGTGTCTCATTGCATTGTACATTAA
ACGAACATAATCATCATCTTATTAATGACTACACAATTAAACAGATGAGACCCGGAGCAT
TCATTGTGAACACGGCTAGAGGCGGTTTAGTTGACGATGAGGCACTCGCGCAAGCTTTAA
AACAAGGCAGAATACGAGCGGCTGCATTGGATGTGCACGAGAATGAGCCATATAATGGTG
CTCTGAAAGATGCACCAAATCTTCTCTGCACGCCGCATGCCGCCTTTTACAGTGAAGCCG
CCACAACAGAGCTCCGCGAAATGGCCGCCAGTGAAATTCGACGCGCAATCATCGGGACCA
TTCCTGATTGTCTCAGAAATTGTGTGAATAAAGAATATTTTATGAGATCATCGTCAGGCG
CAGGATATTCAGAAGCTGGAATTAACGGTGGATATTATTCAGGTGGATTACATACACAAG
TACATAGCACGACACCATTAGAAGCGCCACATAGTGCAGGATCAACACATGCCTCGGCAG
CTAGTGCACCACCATCTCAATCAGCTTCAGCTCCTCCGACTTCTGCACCACCTGGTATAC
ACGGGTTGGTTAGTAAATCGCCTCTTAGTGCCCCTGATCCTAATCATCATTCAGCCAATA
AGCCAGAGTCATCGGAAGTTCACTAGTGTGTTTTTCCGCATATGTGTAAAAAATATATGC
AAATTTATTGATAACGCAAGTTTTATTAATTTAATTTCTCCTCCCTTAATTAATTGGTAT
AGAAAATGAATGAAGAAATTTAGACAGTTTTCACAATTGATGAATTTTTTCTTTGAATGG
ATGGATAGCGCGGGAAAAGAAAATGTTAATGAAACAAAAAAATAAACACACATACACAAA
TCTGTAAAAGAAAAACAAGAAAATTTTAGGATGTGCGAAATGCGAGCAGAAAATTTATGA
AAGTGACGATAAATGATAATTTATGAATAGTGAATACAATATTCGCAAGAACTTGTATAA
GTACTTAGGATTATTAAGGATTAACAAATTTCAAGAGAGAAA

>g2029.t4 Gene=g2029 Length=444
MLPKRPRLDAVRGPISSNGPLQSRPLVALLDGRDCSIEMPILKDVATVAFCDAQSTSEIH
EKVLNEAVGALMWHTIILTKEDLEKFKALRIIVRIGSGVDNIDVKAAGELGIAVCNVPGY
GVEEVADTTLCLILNLYRRTYWLANMVREGKKFTGPEQVRDAAQGCARIRGDTLGIVGLG
RIGSAVALRAKAFGFNVSFYDPYLPDGIEKSLGLNRVYTLQELLFHSDCVSLHCTLNEHN
HHLINDYTIKQMRPGAFIVNTARGGLVDDEALAQALKQGRIRAAALDVHENEPYNGALKD
APNLLCTPHAAFYSEAATTELREMAASEIRRAIIGTIPDCLRNCVNKEYFMRSSSGAGYS
EAGINGGYYSGGLHTQVHSTTPLEAPHSAGSTHASAASAPPSQSASAPPTSAPPGIHGLV
SKSPLSAPDPNHHSANKPESSEVH

Protein features from InterProScan

Transcript Database ID Name Start End E.value
14 g2029.t4 CDD cd05299 CtBP_dh 25 340 1.98821E-151
12 g2029.t4 Gene3D G3DSA:3.40.50.720 - 39 338 3.2E-136
13 g2029.t4 Gene3D G3DSA:3.40.50.720 - 122 312 3.2E-136
10 g2029.t4 MobiDBLite mobidb-lite consensus disorder prediction 383 444 -
11 g2029.t4 MobiDBLite mobidb-lite consensus disorder prediction 383 405 -
3 g2029.t4 PANTHER PTHR46029:SF7 C-TERMINAL-BINDING PROTEIN 16 436 2.8E-237
4 g2029.t4 PANTHER PTHR46029 C-TERMINAL-BINDING PROTEIN 16 436 2.8E-237
2 g2029.t4 Pfam PF00389 D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain 35 346 3.5E-29
1 g2029.t4 Pfam PF02826 D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain 131 311 7.0E-55
8 g2029.t4 ProSitePatterns PS00065 D-isomer specific 2-hydroxyacid dehydrogenases NAD-binding signature. 174 201 -
9 g2029.t4 ProSitePatterns PS00671 D-isomer specific 2-hydroxyacid dehydrogenases signature 3. 252 268 -
7 g2029.t4 SUPERFAMILY SSF52283 Formate/glycerate dehydrogenase catalytic domain-like 24 140 2.27E-59
5 g2029.t4 SUPERFAMILY SSF51735 NAD(P)-binding Rossmann-fold domains 124 311 2.31E-53
6 g2029.t4 SUPERFAMILY SSF52283 Formate/glycerate dehydrogenase catalytic domain-like 295 346 1.31E-6

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:0016616 oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor MF
GO:0003714 transcription corepressor activity MF
GO:0051287 NAD binding MF
GO:0055114 NA NA

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