Gene loci information

Transcript annotation

  • This transcript has been annotated as Cell division cycle protein 27-like 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_1 g11493 g11493.t3 isoform g11493.t3 16612671 16614050
chr_1 g11493 g11493.t3 exon g11493.t3.exon1 16612671 16613312
chr_1 g11493 g11493.t3 cds g11493.t3.CDS1 16612756 16613312
chr_1 g11493 g11493.t3 exon g11493.t3.exon2 16613384 16613769
chr_1 g11493 g11493.t3 cds g11493.t3.CDS2 16613384 16613769
chr_1 g11493 g11493.t3 exon g11493.t3.exon3 16613824 16614050
chr_1 g11493 g11493.t3 cds g11493.t3.CDS3 16613824 16614050
chr_1 g11493 g11493.t3 TTS g11493.t3 16615014 16615014
chr_1 g11493 g11493.t3 TSS g11493.t3 NA NA

Sequences

>g11493.t3 Gene=g11493 Length=1255
AGAAAAAATTGAAACAATCACATCAGCGCAAGTGAAAACTAATGACATAAGTTCATTTCA
AAATGGACAATATAATATAAGTTCAATGAAACGTCAAAGTGCTGATGGATTAATGATTTT
ACTTCAGTCATTGGGTGAGGCATATTTGCATTTGCAACATTATGAGTTAGATGAAGCATT
AGAAGTACTTGAGACAAAAGTACCTATACATCATTTCAATAGCAGTTGGGTTCAATCAAT
AATAGCTTTAATTCATCATGAAAAACGCGAATACGAGCAAGCTGTAAAAATATTTTCAAA
CATCCGAAAGAACGAGCCCTATCGATTACAATATATGGAAATTTATAGCACAGATTTATG
GCATCTACAAAAGGAAACTTTATTATCGATTTTAGCACAGGACTTAATGCAACATAGTAA
AAACTCGGCAATCACATGGTGTGTCGCAGGAAACTGTTTTTCCGCTTTAAAAGAGCATGA
TACTGCAATTAAATTTTTTAATCGAGCTATTCAACTTGATCCAGAATTTCCATATTCATA
TACATTACTTGGTCACGAATTGGTGGTAACTGAGGAATTAGAAAAAGCATTAGGATGCTA
TCGAAAAGCTATTCTTAAAGATTCACGTCATTACAATGCATGGTTTGGAATTGGTACAAT
TTACTCAAAACAAGAGCGTTTTCAGCTTGCAGAAATTCATTTTCGTCATGCTTTGAAAAT
CAATCGGAAAAATTCAGTCATTTTGGTTCACATAGGTGTAATGCAATTTTATTTGAACAA
ACGTGATCAAGCAATTCAAACTTTATTGGATGCAATAAAATTAGATCCAAAAGATCCACT
GAGTAAATTCCATCATGCATCAATGAATTTCAAGATGGGAAAATTGCAAGAAGCGCTTGA
AGAGCTCAAAGAATTAAAACAAATCGTGCCAAAAGAATCTGTAGTGTTTTATCTAATAGG
CAAAATCCATAAACAATTAGGAAATATAGATCTCGCATTGATGCATTTCAGTTGGGCGAC
TGATTTAGATCCAAAAGGAGCCAATAATCAGATAAAGGACAAATTCGATTCAGTCATAAG
ATCTCATCAACAACCAGAACAATCAGATGGTGATATGAGGTCACGAGAAGATTTTGATGA
AGATGACGATGTTTCCCTAGATGAGGACGAAATTGATGCAACTGCATCTAATGATAATAA
CAATAGCAGTGGTGGACTAGAAGAGTCTGAGATTAGCATGAATCAAGATCATTAA

>g11493.t3 Gene=g11493 Length=389
MKRQSADGLMILLQSLGEAYLHLQHYELDEALEVLETKVPIHHFNSSWVQSIIALIHHEK
REYEQAVKIFSNIRKNEPYRLQYMEIYSTDLWHLQKETLLSILAQDLMQHSKNSAITWCV
AGNCFSALKEHDTAIKFFNRAIQLDPEFPYSYTLLGHELVVTEELEKALGCYRKAILKDS
RHYNAWFGIGTIYSKQERFQLAEIHFRHALKINRKNSVILVHIGVMQFYLNKRDQAIQTL
LDAIKLDPKDPLSKFHHASMNFKMGKLQEALEELKELKQIVPKESVVFYLIGKIHKQLGN
IDLALMHFSWATDLDPKGANNQIKDKFDSVIRSHQQPEQSDGDMRSREDFDEDDDVSLDE
DEIDATASNDNNNSSGGLEESEISMNQDH

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g11493.t3 Coils Coil Coil 260 280 -
11 g11493.t3 Gene3D G3DSA:1.25.40.10 - 2 79 6.6E-19
9 g11493.t3 Gene3D G3DSA:1.25.40.10 - 80 212 2.4E-45
10 g11493.t3 Gene3D G3DSA:1.25.40.10 - 213 316 1.9E-27
21 g11493.t3 MobiDBLite mobidb-lite consensus disorder prediction 330 346 -
22 g11493.t3 MobiDBLite mobidb-lite consensus disorder prediction 330 389 -
23 g11493.t3 MobiDBLite mobidb-lite consensus disorder prediction 347 366 -
20 g11493.t3 MobiDBLite mobidb-lite consensus disorder prediction 367 382 -
5 g11493.t3 PANTHER PTHR12558 CELL DIVISION CYCLE 16,23,27 6 327 4.3E-93
6 g11493.t3 PANTHER PTHR12558:SF13 CELL DIVISION CYCLE PROTEIN 27 HOMOLOG 6 327 4.3E-93
1 g11493.t3 Pfam PF00515 Tetratricopeptide repeat 115 148 1.8E-7
2 g11493.t3 Pfam PF13432 Tetratricopeptide repeat 155 212 4.1E-5
3 g11493.t3 Pfam PF13181 Tetratricopeptide repeat 220 250 0.025
4 g11493.t3 Pfam PF13181 Tetratricopeptide repeat 288 317 0.16
31 g11493.t3 ProSiteProfiles PS50293 TPR repeat region circular profile. 10 318 42.575
29 g11493.t3 ProSiteProfiles PS50005 TPR repeat profile. 47 80 6.579
24 g11493.t3 ProSiteProfiles PS50005 TPR repeat profile. 115 148 11.21
28 g11493.t3 ProSiteProfiles PS50005 TPR repeat profile. 149 182 7.877
27 g11493.t3 ProSiteProfiles PS50005 TPR repeat profile. 183 216 9.853
26 g11493.t3 ProSiteProfiles PS50005 TPR repeat profile. 217 250 9.588
30 g11493.t3 ProSiteProfiles PS50005 TPR repeat profile. 251 284 6.431
25 g11493.t3 ProSiteProfiles PS50005 TPR repeat profile. 285 318 9.647
18 g11493.t3 SMART SM00028 tpr_5 47 80 94.0
13 g11493.t3 SMART SM00028 tpr_5 115 148 3.4E-6
17 g11493.t3 SMART SM00028 tpr_5 149 182 0.26
16 g11493.t3 SMART SM00028 tpr_5 183 216 1.3E-5
15 g11493.t3 SMART SM00028 tpr_5 217 250 0.12
19 g11493.t3 SMART SM00028 tpr_5 251 284 460.0
14 g11493.t3 SMART SM00028 tpr_5 285 318 0.03
8 g11493.t3 SUPERFAMILY SSF48452 TPR-like 12 161 1.62E-10
7 g11493.t3 SUPERFAMILY SSF48452 TPR-like 113 318 2.91E-42

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:0005515 protein binding MF

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