Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Kelch-like ECH-associated protein 1.

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 g2670 g2670.t4 isoform g2670.t4 19487438 19488669
chr_3 g2670 g2670.t4 exon g2670.t4.exon1 19487438 19487525
chr_3 g2670 g2670.t4 cds g2670.t4.CDS1 19487478 19487525
chr_3 g2670 g2670.t4 exon g2670.t4.exon2 19487601 19487738
chr_3 g2670 g2670.t4 cds g2670.t4.CDS2 19487601 19487738
chr_3 g2670 g2670.t4 exon g2670.t4.exon3 19487792 19487947
chr_3 g2670 g2670.t4 cds g2670.t4.CDS3 19487792 19487947
chr_3 g2670 g2670.t4 exon g2670.t4.exon4 19488019 19488669
chr_3 g2670 g2670.t4 cds g2670.t4.CDS4 19488019 19488669
chr_3 g2670 g2670.t4 TTS g2670.t4 19488983 19488983
chr_3 g2670 g2670.t4 TSS g2670.t4 NA NA

Sequences

>g2670.t4 Gene=g2670 Length=1033
TTTTGATCCTGAACAAGATAGATGGTTTGTTATTGCACCAATGCGCTCAAAAAGATTGGC
TGTTGGTGTTGCTGTCGTAAATAGATTGCTCTATGCTATAGGTGGCTTTGATGGTGAAAA
TAGATTAGCTTCCATGGAATGTTATCATCCAGAAAATAATGAATGGACAGATATGCCACC
AATGAAATATCCACGTTCTGGGGCTGGCGTTGCTGTTCTCAATCAATACATTTATGTAGT
TGGTGGTTTTGACGGCACAAGACAGTTAGCATCAGTTGAGAGATTTGATACAGATAATAA
AACATGGGAGATTGTTACACCAATGAAAACATCACGAAGTGCATTATCAGTTAATGTGAT
TGATGGAAAATTATACGCTATGGGTGGATATGACGGCACACATTTTCTATCAAATGTTGA
AGTCTATAATCCAGTAGATGATGTTTGGGAAGATGGAATACCATTGACATCAGGTCGTTC
AGGATTGGCTTCAGCTGTGATTTATCAACCATCTTGTCCTCAAACATATTCCCAGGATTC
ATCAATAATTCAACACTCTGCCAATCGAGAATATGATGATAATGGAAAATCATCAGACAT
TCAAGGAGGTAGTGGAAATTCTTCTATAAATTTTGGTTACTCAAGTAATGTTAATCAGAG
AGGCTCATGTGGTCAAGGTAGTGGTGGTCTAAGAGATCAATCTGATCTAATAAACTGTGA
TGATGAAGAATGTGAAAAAAGTCCAGTAAAAAAGGATAAAAATAATACATGTATATTTTT
ACGTATGCATTCGAGATTTAAATGTAATCGCAGCAACAATAACGAGACTAGAAAAGATAA
ATTCATTAATTCAACTACAATTAATTATCATGAGCATCAAAGCAAATGTAATGGTTTAAT
TAAAAAGCATTCAAAATGCAAAGTCAATCCGTGTCCTATTCAACGGTTAACGCAAAAAAT
TCAACATTTTGTATCAAATCGACGAAAATATTGTGATTATCAAAGCAGACTTAAAGAAAG
TGAAGAAAATTAA

>g2670.t4 Gene=g2670 Length=330
MRSKRLAVGVAVVNRLLYAIGGFDGENRLASMECYHPENNEWTDMPPMKYPRSGAGVAVL
NQYIYVVGGFDGTRQLASVERFDTDNKTWEIVTPMKTSRSALSVNVIDGKLYAMGGYDGT
HFLSNVEVYNPVDDVWEDGIPLTSGRSGLASAVIYQPSCPQTYSQDSSIIQHSANREYDD
NGKSSDIQGGSGNSSINFGYSSNVNQRGSCGQGSGGLRDQSDLINCDDEECEKSPVKKDK
NNTCIFLRMHSRFKCNRSNNNETRKDKFINSTTINYHEHQSKCNGLIKKHSKCKVNPCPI
QRLTQKIQHFVSNRRKYCDYQSRLKESEEN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
13 g2670.t4 Gene3D G3DSA:2.120.10.80 - 1 169 1.2E-61
4 g2670.t4 PANTHER PTHR24412 KELCH PROTEIN 1 164 1.1E-56
5 g2670.t4 PANTHER PTHR24412:SF162 KELCH-LIKE ECH-ASSOCIATED PROTEIN 1 1 164 1.1E-56
8 g2670.t4 PRINTS PR00501 Kelch repeat signature 14 27 7.8E-7
6 g2670.t4 PRINTS PR00501 Kelch repeat signature 31 45 7.8E-7
7 g2670.t4 PRINTS PR00501 Kelch repeat signature 46 58 7.8E-7
1 g2670.t4 Pfam PF01344 Kelch motif 6 48 2.4E-15
2 g2670.t4 Pfam PF01344 Kelch motif 51 95 3.3E-16
3 g2670.t4 Pfam PF01344 Kelch motif 99 137 1.4E-11
15 g2670.t4 Phobius SIGNAL_PEPTIDE Signal peptide region 1 19 -
16 g2670.t4 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 5 -
17 g2670.t4 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 6 13 -
18 g2670.t4 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 14 19 -
14 g2670.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 20 330 -
10 g2670.t4 SMART SM00612 kelc_smart 16 62 7.0E-19
12 g2670.t4 SMART SM00612 kelc_smart 63 109 3.9E-15
11 g2670.t4 SMART SM00612 kelc_smart 110 156 3.5E-11
9 g2670.t4 SUPERFAMILY SSF117281 Kelch motif 3 154 9.29E-46

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:0016567 protein ubiquitination BP
GO:0031463 Cul3-RING ubiquitin ligase complex CC
GO:0008134 transcription factor binding MF

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