Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative G2/mitotic-specific cyclin-B.

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 g3839 g3839.t2 TTS g3839.t2 28313381 28313381
chr_3 g3839 g3839.t2 isoform g3839.t2 28314013 28314773
chr_3 g3839 g3839.t2 exon g3839.t2.exon1 28314013 28314773
chr_3 g3839 g3839.t2 cds g3839.t2.CDS1 28314014 28314322
chr_3 g3839 g3839.t2 TSS g3839.t2 28315409 28315409

Sequences

>g3839.t2 Gene=g3839 Length=761
CAAGTAAGTTTAATGATTAAATTGTTGCTATTAATTATTTTGTAATTATTGAAAATTTAT
AGGTTGACAATATTGACGAAACTGATAAAGAAAATCCTCAATTGCTTTCTGAATACGTTA
ATGACATTTATGCATATTTGATGAAATTGGAAAAGCAATTTCCGATCCGTGAAAATTTTT
TGGATAATCAAATGGATGTAACACCAAAAATGCGCTCAGTTTTGTTGGATTGGATAAGTG
AAGTTCATCACCAATTTGGATTGGAAATTGAAACGTTTCACATGGCTGTCTCGATCGTTG
ATCGCTATCTTCAAGCGCAACAAGCAACTCCACGACGCTACTTGCAATTAGTCGGTGTTA
CAGCTTTATTCATGGCATCTAAGGTAATTTGTAATTTGCATGTAATATCAATTTAATTAA
TTTAATTTTCAATTTCTAGTATGAAGAATTAATGCCACCGGAAATTTCTGATTTTGTTTA
TGTAACTGATGATACATATGAAAAGAAACAAATCTTACAAATGGAAATGCAAATGTTTAA
AACACTTGAATACTCATTGTGTAAGCCTCTTCCTATTCATTTTCTCAGACGGTTTGCAAA
AGCTGCAGGTTCTCTCGGTGATAGACAATACATTGCGGCTAAATATTTTATTGAATTGGC
AGCTATCGATTACGAACTCACAAAGTACAATCCATCAGAGGTAAACTTATACTTTTTAAA
TTTGTTTTACAATGTGCTTACAATTATTTTTTTTATTCAGA

>g3839.t2 Gene=g3839 Length=103
MPPEISDFVYVTDDTYEKKQILQMEMQMFKTLEYSLCKPLPIHFLRRFAKAAGSLGDRQY
IAAKYFIELAAIDYELTKYNPSEVNLYFLNLFYNVLTIIFFIQ

Protein features from InterProScan

Transcript Database ID Name Start End E.value
13 g3839.t2 CDD cd00043 CYCLIN 39 84 0.00120763
8 g3839.t2 Gene3D G3DSA:1.10.472.10 - 1 30 5.8E-7
9 g3839.t2 Gene3D G3DSA:1.10.472.10 - 31 89 5.7E-12
3 g3839.t2 PANTHER PTHR10177:SF193 G2/MITOTIC-SPECIFIC CYCLIN-B1 2 87 3.0E-25
4 g3839.t2 PANTHER PTHR10177 CYCLINS 2 87 3.0E-25
1 g3839.t2 Pfam PF00134 Cyclin, N-terminal domain 2 37 4.3E-9
2 g3839.t2 Pfam PF02984 Cyclin, C-terminal domain 39 84 9.2E-9
11 g3839.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 83 -
12 g3839.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 84 102 -
10 g3839.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 103 103 -
7 g3839.t2 SUPERFAMILY SSF47954 Cyclin-like 2 37 9.92E-9
6 g3839.t2 SUPERFAMILY SSF47954 Cyclin-like 39 84 5.27E-8
5 g3839.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 84 102 -

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 gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).

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. There were no conditions that were differentially expressed