Gene loci information

Transcript annotation

  • This transcript has been annotated as Kinesin light chain.

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 g11349 g11349.t2 isoform g11349.t2 15747990 15749367
chr_1 g11349 g11349.t2 exon g11349.t2.exon1 15747990 15748217
chr_1 g11349 g11349.t2 cds g11349.t2.CDS1 15747990 15748217
chr_1 g11349 g11349.t2 exon g11349.t2.exon2 15748277 15749367
chr_1 g11349 g11349.t2 cds g11349.t2.CDS2 15748277 15748921
chr_1 g11349 g11349.t2 TSS g11349.t2 NA NA
chr_1 g11349 g11349.t2 TTS g11349.t2 NA NA

Sequences

>g11349.t2 Gene=g11349 Length=1319
ATGACACAAATGACCCAAGAAGAAATTGTCACAAACACAAAGACGGTCTTGCAGGGACTT
GAAGCACTACGACATGAACACATGTCAATTATGTCTGGTCTCACTGAAGGCAAAAAAGAT
CCAGACAAAGTAGACATTATCCAAAAAAATATTGAAAACATTGAATTGGGTTTAGGTGAA
GCTCAGGTATGCAACAAACCAATTTTGTTTGCCTTTTATGATTTGACTTAATTACTCATT
GTAATTCTTTTTGTCTTTCTTTCGTCTCATTCTGGCTTTTATTGCAATCCACTTTTCAGG
TCATTGTAGTGTTAGCGTCACATTTACAAAATATTGAAGCCGAAAAACAGAAATTACGGA
CACAAGTTCGGCGTCTGTGTCAAGAAAATGCATGGCTTCGAGATGAATTAGCAAATACAC
AACAAAAATTGCAAACATCAGAGCAAATGGTGGCACAACTTGAAGAAGAGAAAAAACATC
TTGATTTTATGCAATCTGTACGCAAATATGATGAAAATCAAGACGAGATTAATGAAAATG
AAAAGTCACGTACTGATCCAGTCGTTGAATTGTTTCCTGAAGATGAACAAGAAGATCGCA
ACAATATGTCGCCTACACCACCAAGTCAATTTGCAAATCAAGCTAATGCCGGTTATGAAA
TTCCAGCTCGTCTTAGAACACTTCATAATCTCGTTATTCAATATGCATCGCAAGGGCGTT
ATGAGGTAGCAGTACCATTGTGCAAACAAGCACTTGAAGATCTTGAAAAAACTAGTGGAC
ATGATCATCCAGATGTGGCAACAATGCTCAACATTCTCGCATTAGTTTATCGTGATCAAA
ACAAATATAAGGAAGCAGCCAATTTATTAAATGATGCTCTTACAATTCGAGAGAAAACGC
TTGGCGAAAATCATCCAGCAGTTGCTGCAACTCTTAATAATTTGGCTGTCTTATATGGAA
AGCGTGGCAAATATAAAGATGCAGAGCCACTATGCAAACGTGCATTAGAAATTCGAGAAA
AAGTTCTTGGCAAAGATCATCCAGATGTTGCAAAGCAATTAAATAATTTGGCATTATTGT
GTCAAAATCAAGGAAAATATGAAGAAGTTGAGCTTTACTATCAGAGAGCATTAGAAATTT
ATGAGCATAAACTTGGACCAGATGATCCAAATGTTGCAAAAACGAAAAATAATTTAGCAA
GCTGCTATCTTAAGCAGGGTAAATACAAGGAAGCTGAAATTCTTTACAAGCAAGTGTTGA
CACGTGCACATGAACGAGAATTTGGAACAATTGATGGTGATAATAAGCCAATTTGGCAG

>g11349.t2 Gene=g11349 Length=291
MVAQLEEEKKHLDFMQSVRKYDENQDEINENEKSRTDPVVELFPEDEQEDRNNMSPTPPS
QFANQANAGYEIPARLRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATM
LNILALVYRDQNKYKEAANLLNDALTIREKTLGENHPAVAATLNNLAVLYGKRGKYKDAE
PLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVELYYQRALEIYEHKLGPDD
PNVAKTKNNLASCYLKQGKYKEAEILYKQVLTRAHEREFGTIDGDNKPIWQ

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g11349.t2 Gene3D G3DSA:1.25.40.10 - 59 291 8.9E-121
18 g11349.t2 MobiDBLite mobidb-lite consensus disorder prediction 1 59 -
19 g11349.t2 MobiDBLite mobidb-lite consensus disorder prediction 1 52 -
4 g11349.t2 PANTHER PTHR45783 KINESIN LIGHT CHAIN 2 290 4.7E-164
5 g11349.t2 PANTHER PTHR45783:SF7 KINESIN LIGHT CHAIN 1 2 290 4.7E-164
7 g11349.t2 PRINTS PR00381 Kinesin light chain signature 69 88 4.9E-64
9 g11349.t2 PRINTS PR00381 Kinesin light chain signature 91 109 4.9E-64
10 g11349.t2 PRINTS PR00381 Kinesin light chain signature 156 173 4.9E-64
8 g11349.t2 PRINTS PR00381 Kinesin light chain signature 200 220 4.9E-64
6 g11349.t2 PRINTS PR00381 Kinesin light chain signature 235 256 4.9E-64
1 g11349.t2 Pfam PF13424 Tetratricopeptide repeat 76 150 2.0E-17
2 g11349.t2 Pfam PF13424 Tetratricopeptide repeat 159 233 2.7E-20
3 g11349.t2 Pfam PF13374 Tetratricopeptide repeat 243 281 1.1E-5
13 g11349.t2 ProSitePatterns PS01160 Kinesin light chain repeat. 227 268 -
21 g11349.t2 ProSiteProfiles PS50005 TPR repeat profile. 76 109 5.281
25 g11349.t2 ProSiteProfiles PS50293 TPR repeat region circular profile. 76 277 20.343
23 g11349.t2 ProSiteProfiles PS50005 TPR repeat profile. 118 151 8.378
24 g11349.t2 ProSiteProfiles PS50005 TPR repeat profile. 160 193 7.906
20 g11349.t2 ProSiteProfiles PS50005 TPR repeat profile. 202 235 7.788
22 g11349.t2 ProSiteProfiles PS50005 TPR repeat profile. 244 277 7.788
16 g11349.t2 SMART SM00028 tpr_5 118 151 0.24
17 g11349.t2 SMART SM00028 tpr_5 160 193 3.2E-5
14 g11349.t2 SMART SM00028 tpr_5 202 235 0.0023
15 g11349.t2 SMART SM00028 tpr_5 244 277 3.5E-4
11 g11349.t2 SUPERFAMILY SSF48452 TPR-like 92 275 3.74E-29

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:0005871 kinesin complex 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.

Raw TPM values