Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative F54F2.9-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 g11969 g11969.t4 isoform g11969.t4 19961728 19962764
chr_1 g11969 g11969.t4 exon g11969.t4.exon1 19961728 19962764
chr_1 g11969 g11969.t4 cds g11969.t4.CDS1 19961728 19962636
chr_1 g11969 g11969.t4 TSS g11969.t4 19963384 19963384
chr_1 g11969 g11969.t4 TTS g11969.t4 NA NA

Sequences

>g11969.t4 Gene=g11969 Length=1037
CAATATTTGAGTCAAAGGCCAAAAAAGTGAGAAAAGCTAATGTAAACATTGATTCAATAT
TAAATGAAATTCCAAAACCGAGCATAAAAAATACTTTGCCTTTCCAAATACCTATTGGTA
TTTATCGTATGATTATGGGAACACCGTCAGCCATTAAAGAATCTGTGAATTTTATGTCAG
AAGAACTTAAAAAAGAACTTGAAAAGAAAAGACTAGAAAAAGAAGAGGAAGAGTTGCTTA
AAAAATTAGAGGCTGAAAAGCAAAGAGAAAAAGCAGAAAGAAAAGAAGGACTAAGAAAGC
GAAAAGAGGAAGCTGCTAAATTAATGGAAAAGACAGATGAAGAGCTTGCCAGATATTCTG
CAACAATTATCACAAGAAAACCTGGCTATGAAGAAATTAAGAAAATTCCACTCAGTGGTG
GTCTGTGGACGGATGAGGATCTTAGTGAGTTAGCTCGCTTGACTAAAAAATATCCAGGAG
GTACACAAGATCGATGGGAAATAATCGCAGAGACAATGAACAGAAATGTTAGTGAAGTCA
CATTTATGGCTTATAAGTTAAAAGATAATGCTTACACAGCTCCAGGTGAAACTGATAAAC
TTGTTCAAAATATTAATAAAGAACTTAGTAAAAAAACCAAAACTAAAGCGTCAGTTGAAC
AGTCATCAGAGAAAAATTGGACACAAGAACAACAAAAAGCGCTTGAAGCTGCTATCCAAA
AATATCCCAAGAAAGGAAATGAAGATCGTTGGGCAAAAATTGCTAATAGTGTGCCAGGAA
AAACAAAAGAAGAATGTCAAGCACGTTATAAATATTTGGTTGATTTGTTAAAGAAACAAA
AAGAAGCGAAAGAGAGAGAAGAAAAGGCTGTTCAAGAAGAGGAGGAAGTGGTTGAAAATG
TAATAGATGAGCCTGAAGAAGAAGTCATAGAGCAAAAGCAAACTGGTGGAAAAAAGAAAA
ACAAACGAAAAGAAAAGAAAAAGAATATCGATTATTATGCTGATAGTTATTCAGATGAAG
ATGATGTCAGTGAATGA

>g11969.t4 Gene=g11969 Length=302
MIMGTPSAIKESVNFMSEELKKELEKKRLEKEEEELLKKLEAEKQREKAERKEGLRKRKE
EAAKLMEKTDEELARYSATIITRKPGYEEIKKIPLSGGLWTDEDLSELARLTKKYPGGTQ
DRWEIIAETMNRNVSEVTFMAYKLKDNAYTAPGETDKLVQNINKELSKKTKTKASVEQSS
EKNWTQEQQKALEAAIQKYPKKGNEDRWAKIANSVPGKTKEECQARYKYLVDLLKKQKEA
KEREEKAVQEEEEVVENVIDEPEEEVIEQKQTGGKKKNKRKEKKKNIDYYADSYSDEDDV
SE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g11969.t4 CDD cd00167 SANT 183 231 3.96648E-9
8 g11969.t4 Coils Coil Coil 13 79 -
7 g11969.t4 Coils Coil Coil 230 261 -
6 g11969.t4 Gene3D G3DSA:1.10.10.60 - 96 156 2.0E-15
5 g11969.t4 Gene3D G3DSA:1.10.10.60 - 182 230 1.4E-18
12 g11969.t4 MobiDBLite mobidb-lite consensus disorder prediction 240 302 -
2 g11969.t4 PANTHER PTHR44653 DNAJ HOMOLOG SUBFAMILY C MEMBER 1 3 241 5.1E-42
1 g11969.t4 Pfam PF00249 Myb-like DNA-binding domain 182 229 6.1E-10
13 g11969.t4 ProSiteProfiles PS50090 Myb-like domain profile. 92 133 5.482
14 g11969.t4 ProSiteProfiles PS51293 SANT domain profile. 179 239 10.107
11 g11969.t4 SMART SM00717 sant 96 147 9.8E-4
10 g11969.t4 SMART SM00717 sant 180 233 5.2E-11
3 g11969.t4 SUPERFAMILY SSF46689 Homeodomain-like 98 149 1.79E-8
4 g11969.t4 SUPERFAMILY SSF46689 Homeodomain-like 180 234 1.35E-11

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.

Raw TPM values