Gene loci information

Transcript annotation

  • This transcript has been annotated as Cell division cycle protein 23-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_2 g6407 g6407.t1 isoform g6407.t1 16876261 16878087
chr_2 g6407 g6407.t1 exon g6407.t1.exon1 16876261 16876916
chr_2 g6407 g6407.t1 cds g6407.t1.CDS1 16876261 16876916
chr_2 g6407 g6407.t1 exon g6407.t1.exon2 16876978 16877940
chr_2 g6407 g6407.t1 cds g6407.t1.CDS2 16876978 16877940
chr_2 g6407 g6407.t1 exon g6407.t1.exon3 16877994 16878087
chr_2 g6407 g6407.t1 cds g6407.t1.CDS3 16877994 16878087
chr_2 g6407 g6407.t1 TSS g6407.t1 NA NA
chr_2 g6407 g6407.t1 TTS g6407.t1 NA NA

Sequences

>g6407.t1 Gene=g6407 Length=1713
ATGGTCGATTTAATGAATTTTAATCTGGTAGAAGTTAAACAGGATTTAATTAAGGGTATT
ATAGAATGTAATAAGCGTGGATTAATTCATTCGAGTAAATGGCTTGCAGAATTAAATCAA
GGTATTCAAATTGTAGAATTTGAAAACTCTTTAATAGATGCAAACACTGCTAATGCTGGA
ATATCACATGAAGAATTTGATAGCTATATGCTTGCAAAGACATATTTTGATTGTCGTGAA
TATGACAGAGCGGCTTATTTCACTCGAAATTCAATATCACCAGTTCCTCGCTTCATTTAT
CTCTATTCAATGTATATGGCAAAGGAGAAGAAACGATTAGATAATTCACCAGATAATGCA
ACTCTTCTCACTGGAAATGCTCATCTCAAAGATCTTAGTGAATTAATGTCCATACTTAAT
GAAGAATATAATCAAAAGAAGCTTGATGGATATGGAATGTATCTATATGGAGTCATATTA
AAAAAACTTGATTTAACACAACTTGCTGTAACAGTGTTTCTTGAGTGTGTCCATCTTGTT
CCAACATTGTGGAGTGCATGGATTGAATTATCACCATTAATTCAAGATACTGAACAATTA
AGAGGATTAAATTTGCCGAAGCATTGGATTAAAACATTCTTTATTGCTCACACTTTTATT
GAAATATTTGTTAATGACACTGGTATAAGTCTTTTTGAAGAGTTGCAGCATGCAGGTTTT
GAAAAATGCATCTACATAACTTCACAAATTGCAATAGCTTATCACAACAAACGAGAAGTC
GATAAAGCTATAGAAATGTTTCAACAAATTCTCTCTATTGATCCATATCGCTTAGAAAAT
TTAGACATGTACTCAAACCTTCTATTTGTGCGTGAACAAAAAACTGAAATGGCACATTTA
GCTCATAAAGCAGTACAAATTAATAAATATCGACCTGAAACATGCTGCGTCATTGGAAAT
TACTACAGCATACGAGGTGAACATCAGAAAGCTATTCTTTACTTTCAACGAGCACTCAAA
TTGAATCCAAAATATTTATCAGCCTGGACACTTATGGGCCACGAATTTATGGAACTTAAA
AATACGAATGCTGCTATTCAAAGTTATAGACAAGCAGTGGAAGTTAATAGAAGAGATTTT
CGTGCATGGTATGGTCTTGGTCAGGCATATGAAATTATTAAAATGCCATTTTATGGTCTT
CATTATTACAAAATTGCTACTCAACTTAGACCATATGATAGTCGGATGTTACTCGCTCTT
GGTGAAACATATGAGAAACTCGATAAAAAGTCTAATGCAATAAAATGTTATCAAAAAGCT
TGTAATGTTGGTGACATTGAAGGTTTTGCTATGTTAAAACTTGGAAAACTCTATGAAGAT
CTAAAAGATCAAGAAAATGCAGTCAATGCATATAAAAATTATGTTAATGATGAACGATCA
AACAGTGAAAAAAATTCTCTCATTCATGCTTATTTATATCTTGCAACTTATTATGTGGAA
AAGAAAAATTTTGAAGATGCAACTTATTATGCCCACAAAGTACTCGAAATCGATGAAACA
AAGCCAGAGGCAAAATCAATATTGAAAACTATTGCAAGTAGTCGAGTGAAACAAGAGGGA
GACGATATGGCTGAAGTTAATATGGACTTAGAACAATCTAATATTGTTCCTCAAGAAATA
AGTGGTGAAGATATGGATATGTCAACGGCATAA

>g6407.t1 Gene=g6407 Length=570
MVDLMNFNLVEVKQDLIKGIIECNKRGLIHSSKWLAELNQGIQIVEFENSLIDANTANAG
ISHEEFDSYMLAKTYFDCREYDRAAYFTRNSISPVPRFIYLYSMYMAKEKKRLDNSPDNA
TLLTGNAHLKDLSELMSILNEEYNQKKLDGYGMYLYGVILKKLDLTQLAVTVFLECVHLV
PTLWSAWIELSPLIQDTEQLRGLNLPKHWIKTFFIAHTFIEIFVNDTGISLFEELQHAGF
EKCIYITSQIAIAYHNKREVDKAIEMFQQILSIDPYRLENLDMYSNLLFVREQKTEMAHL
AHKAVQINKYRPETCCVIGNYYSIRGEHQKAILYFQRALKLNPKYLSAWTLMGHEFMELK
NTNAAIQSYRQAVEVNRRDFRAWYGLGQAYEIIKMPFYGLHYYKIATQLRPYDSRMLLAL
GETYEKLDKKSNAIKCYQKACNVGDIEGFAMLKLGKLYEDLKDQENAVNAYKNYVNDERS
NSEKNSLIHAYLYLATYYVEKKNFEDATYYAHKVLEIDETKPEAKSILKTIASSRVKQEG
DDMAEVNMDLEQSNIVPQEISGEDMDMSTA

Protein features from InterProScan

Transcript Database ID Name Start End E.value
22 g6407.t1 Coils Coil Coil 129 149 -
21 g6407.t1 Gene3D G3DSA:1.25.40.10 - 7 308 4.5E-86
20 g6407.t1 Gene3D G3DSA:1.25.40.10 - 309 516 1.3E-58
7 g6407.t1 PANTHER PTHR12558:SF10 CELL DIVISION CYCLE PROTEIN 23 HOMOLOG 8 546 2.3E-200
8 g6407.t1 PANTHER PTHR12558 CELL DIVISION CYCLE 16,23,27 8 546 2.3E-200
3 g6407.t1 Pfam PF04049 Anaphase promoting complex subunit 8 / Cdc23 11 115 1.3E-23
6 g6407.t1 Pfam PF13181 Tetratricopeptide repeat 249 275 0.061
1 g6407.t1 Pfam PF00515 Tetratricopeptide repeat 313 345 1.3E-7
2 g6407.t1 Pfam PF13414 TPR repeat 353 390 1.7E-8
4 g6407.t1 Pfam PF13181 Tetratricopeptide repeat 415 441 8.9E-4
5 g6407.t1 Pfam PF13181 Tetratricopeptide repeat 451 474 0.019
27 g6407.t1 ProSiteProfiles PS50005 TPR repeat profile. 244 277 9.912
30 g6407.t1 ProSiteProfiles PS50293 TPR repeat region circular profile. 244 521 42.474
29 g6407.t1 ProSiteProfiles PS50005 TPR repeat profile. 312 345 11.24
23 g6407.t1 ProSiteProfiles PS50005 TPR repeat profile. 346 379 10.03
26 g6407.t1 ProSiteProfiles PS50005 TPR repeat profile. 380 413 6.225
25 g6407.t1 ProSiteProfiles PS50005 TPR repeat profile. 414 447 7.7
28 g6407.t1 ProSiteProfiles PS50005 TPR repeat profile. 448 481 7.228
24 g6407.t1 ProSiteProfiles PS50005 TPR repeat profile. 488 521 8.644
17 g6407.t1 SMART SM00028 tpr_5 244 277 0.68
19 g6407.t1 SMART SM00028 tpr_5 312 345 1.8E-6
13 g6407.t1 SMART SM00028 tpr_5 346 379 0.0035
16 g6407.t1 SMART SM00028 tpr_5 380 413 10.0
15 g6407.t1 SMART SM00028 tpr_5 414 447 0.58
18 g6407.t1 SMART SM00028 tpr_5 448 481 310.0
14 g6407.t1 SMART SM00028 tpr_5 488 521 3.3
9 g6407.t1 SUPERFAMILY SSF48452 TPR-like 128 278 1.64E-7
12 g6407.t1 SUPERFAMILY SSF48452 TPR-like 246 339 7.94E-10
11 g6407.t1 SUPERFAMILY SSF48452 TPR-like 312 476 1.52E-30
10 g6407.t1 SUPERFAMILY SSF48452 TPR-like 450 531 9.49E-7

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
GO:0030071 regulation of mitotic metaphase/anaphase transition BP
GO:0005680 anaphase-promoting complex CC

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