Gene loci information

Transcript annotation

  • This transcript has been annotated as hypothetical.

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 g12966 g12966.t1 TSS g12966.t1 27190123 27190123
chr_1 g12966 g12966.t1 isoform g12966.t1 27190294 27191353
chr_1 g12966 g12966.t1 exon g12966.t1.exon1 27190294 27190296
chr_1 g12966 g12966.t1 cds g12966.t1.CDS1 27190294 27190296
chr_1 g12966 g12966.t1 exon g12966.t1.exon2 27190357 27191175
chr_1 g12966 g12966.t1 cds g12966.t1.CDS2 27190357 27191175
chr_1 g12966 g12966.t1 exon g12966.t1.exon3 27191231 27191353
chr_1 g12966 g12966.t1 cds g12966.t1.CDS3 27191231 27191353
chr_1 g12966 g12966.t1 TTS g12966.t1 NA NA

Sequences

>g12966.t1 Gene=g12966 Length=945
ATGTTCTTTAAACCGATCGATCTTACTCAAGATCCTGATGATGATCAAATGATTGATCTC
ACTCAAGAACTTGATGATAATGAGCAACCAAAGCAAAAAAGAACTGCATCAGCAAAACTA
GAGGTATATAGAAAAGAATTTTTAGAAACTATAAAACTTGAATCAGATAGCGAGGAAGAA
GTTTCTTATTCTTATACTCCTAATAATTTAAAAGTTGTTAACAAAAAGAAATCTCAATCA
TTATCGGACAATAATAGTGATAGTAGTGATACAGATCAAAAAGAAGAAAAGGAGGAAGCA
AACATTAAACAAATCGGAGAATCAAGTCGATCTAATGCATCACCACCACCACCGCAACAA
TATCAGAGTAACACATCCACAAGCAGTAGTAGTGATGATGAGTCAAGTGAAGACGATGAA
AGAGTTATTGTTAAATCTCGTCCAAAGCAAAAGGTGCTGCTGAGATTGCGCCCACTGTTG
TCAAATTGTAGTACGACTGATGATGAAAATGAAGAGAGAAATATTGTACGAGATAGATCA
AAAAGAAAATTCAAAAGAAATGCACCGAAAAAATTAATAGAAAGTGAAAGAGTACAAAAC
ATTGAGAAGGCAAATCCTAAAAAAAGAGATGAAACGTTTGTCAATAAAAACGGTCAAGCA
AGATATAAACCTGGTATTAGAGCATTAAAAGAAATAAGAAAACTTCAAAATTCAACAAAA
ATAGCGATTCCACGAGTAGTATTTGCTCGAGCTGTCAAAGAAATTCTTCAAGATTCAAAA
GAGAACTTTAAAATTCAAGCACAAGCTTTGATTGCATTACAAGAAGCCGCAGAAGATTAC
ATCGTGAATCATTTTGAAATGATGAATCTCGCAGCGATTCATGCTAAACGTGTAACAGTG
ATGCAAAATGATTCTAAACTGGTAAAAAGAATTGGAAAGAAGTGA

>g12966.t1 Gene=g12966 Length=314
MFFKPIDLTQDPDDDQMIDLTQELDDNEQPKQKRTASAKLEVYRKEFLETIKLESDSEEE
VSYSYTPNNLKVVNKKKSQSLSDNNSDSSDTDQKEEKEEANIKQIGESSRSNASPPPPQQ
YQSNTSTSSSSDDESSEDDERVIVKSRPKQKVLLRLRPLLSNCSTTDDENEERNIVRDRS
KRKFKRNAPKKLIESERVQNIEKANPKKRDETFVNKNGQARYKPGIRALKEIRKLQNSTK
IAIPRVVFARAVKEILQDSKENFKIQAQALIALQEAAEDYIVNHFEMMNLAAIHAKRVTV
MQNDSKLVKRIGKK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g12966.t1 Gene3D G3DSA:1.10.20.10 Histone 176 314 1.5E-37
5 g12966.t1 MobiDBLite mobidb-lite consensus disorder prediction 50 146 -
8 g12966.t1 MobiDBLite mobidb-lite consensus disorder prediction 60 87 -
7 g12966.t1 MobiDBLite mobidb-lite consensus disorder prediction 88 104 -
6 g12966.t1 MobiDBLite mobidb-lite consensus disorder prediction 105 131 -
2 g12966.t1 PANTHER PTHR45810 HISTONE H3.2 190 311 2.4E-30
1 g12966.t1 Pfam PF00125 Core histone H2A/H2B/H3/H4 183 311 5.5E-25
4 g12966.t1 SMART SM00428 h35 214 314 1.9E-32
3 g12966.t1 SUPERFAMILY SSF47113 Histone-fold 200 304 6.58E-26

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:0003677 DNA binding MF
GO:0046982 protein heterodimerization activity MF
GO:0000786 nucleosome CC

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