Gene loci information

Transcript annotation

  • This transcript has been annotated as Locomotion-related protein Hikaru genki.

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 g10551 g10551.t1 isoform g10551.t1 10445994 10447634
chr_1 g10551 g10551.t1 exon g10551.t1.exon1 10445994 10446087
chr_1 g10551 g10551.t1 cds g10551.t1.CDS1 10445994 10446087
chr_1 g10551 g10551.t1 exon g10551.t1.exon2 10446273 10446432
chr_1 g10551 g10551.t1 cds g10551.t1.CDS2 10446273 10446432
chr_1 g10551 g10551.t1 exon g10551.t1.exon3 10446494 10446819
chr_1 g10551 g10551.t1 cds g10551.t1.CDS3 10446494 10446819
chr_1 g10551 g10551.t1 exon g10551.t1.exon4 10446886 10447058
chr_1 g10551 g10551.t1 cds g10551.t1.CDS4 10446886 10447058
chr_1 g10551 g10551.t1 exon g10551.t1.exon5 10447123 10447174
chr_1 g10551 g10551.t1 cds g10551.t1.CDS5 10447123 10447174
chr_1 g10551 g10551.t1 exon g10551.t1.exon6 10447237 10447634
chr_1 g10551 g10551.t1 cds g10551.t1.CDS6 10447237 10447634
chr_1 g10551 g10551.t1 TSS g10551.t1 NA NA
chr_1 g10551 g10551.t1 TTS g10551.t1 NA NA

Sequences

>g10551.t1 Gene=g10551 Length=1203
ATGATAGGAAGCAGTAATCGTACATGCATTCGAAGCAGATGGACTGGTCAAAAACCTCAT
TGTTATGGATTAAATCAGGAAAATGATTATGCGATGGAAAAAGCTCCAACAATTTTATTT
AGACATCAAAATGGTCCAATAGCACAAAGTAATGATGGAAGATTGATTGTTTATCCTGGA
ACAACTGTACACATGGAATGTCTTTGGATGAGAAGATTTGGTACACCACGATGGAACGTT
AGTCATGAATTGAAAAAATATCCTGAAGGTTGGAATACAGATGAAGGAAGAGATCCACAA
TTAGAGTATCGTTTGAGTATTTTTAATGCAGAAGTAGGAGATTCTGGAACTTTTACATGC
ATCACACCTGCTAGACATACTCATTCAGTTGTAGTTGAAGTCAAAGCAGTTCATTGTGGT
GAAATTATGCCAAGAAGAGGTTTAGTGTTGAGCACGACTGCTACTCAAATGGGAACAAAA
GTTCAATTTTCTTGCAATAACGGTAATGCATTGATAGGTACACAAGAAATTCAATGTTTA
GCCAGTGGAAATTGGAGCGGTCCTTTACCCATTTGTGAAAGTGTCGAATGTGGAGAAGTG
CCGATTCCGGCGGGATTAAATGGTTCTGCACCACGTGTTGCAATCATTTCAAGAGAAGTA
GGAGGAAGAGCAGCATTTTCTTGTCCAGCTGGTCACGGTCTAAAAGGACCGAGTGAAACA
TTTTGTTTACCAAGCGGTGAATGGAGTGGACCTATTCCAACTTGTTCAGAAGTTCAATGC
TTTCACCCTGGGCAGCCATCAAACGGTTATACACAAGGAACACCACCCTATAAAGCAGGT
GATGTTGTGCAATTTAATTGTAATCCAGAATACATGATGCAAGGGCAGCCAATAATTGCG
TGTCAAGACAACGGACGATGGAGCGGTCCTATACCGAAATGTGTTCGAGCATGCAGCTAT
CCCGGAACAGCAATAAGTGGACGTATGTCTTCCGTTAAATTTTACTATACAATTGGTGAA
ACGGTAGCATTTTCATGTGACAATGGTTTAGAAATTAGAGGCCCAAAAATGCTCAAATGT
TTAAAAGACGGTAAATGGAGTTCATCTATTCCTGTTTGCGTTTCATCGGACCATGCAGAT
ACTACAGCTGCCACAGCAGCTCCAAGAATTACAAGAGCAGCAAAAATTGAACGATTCATT
TAA

>g10551.t1 Gene=g10551 Length=400
MIGSSNRTCIRSRWTGQKPHCYGLNQENDYAMEKAPTILFRHQNGPIAQSNDGRLIVYPG
TTVHMECLWMRRFGTPRWNVSHELKKYPEGWNTDEGRDPQLEYRLSIFNAEVGDSGTFTC
ITPARHTHSVVVEVKAVHCGEIMPRRGLVLSTTATQMGTKVQFSCNNGNALIGTQEIQCL
ASGNWSGPLPICESVECGEVPIPAGLNGSAPRVAIISREVGGRAAFSCPAGHGLKGPSET
FCLPSGEWSGPIPTCSEVQCFHPGQPSNGYTQGTPPYKAGDVVQFNCNPEYMMQGQPIIA
CQDNGRWSGPIPKCVRACSYPGTAISGRMSSVKFYYTIGETVAFSCDNGLEIRGPKMLKC
LKDGKWSSSIPVCVSSDHADTTAATAAPRITRAAKIERFI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
26 g10551.t1 CDD cd00033 CCP 158 193 0.0000000
28 g10551.t1 CDD cd00033 CCP 197 255 0.0000001
29 g10551.t1 CDD cd00033 CCP 260 315 0.0000000
27 g10551.t1 CDD cd00033 CCP 318 374 0.0000000
16 g10551.t1 Gene3D G3DSA:2.60.40.10 Immunoglobulins 37 136 0.0000034
20 g10551.t1 Gene3D G3DSA:2.10.70.10 Complement Module 137 193 0.0000000
18 g10551.t1 Gene3D G3DSA:2.10.70.10 Complement Module 201 259 0.0000000
17 g10551.t1 Gene3D G3DSA:2.10.70.10 Complement Module 260 317 0.0000000
19 g10551.t1 Gene3D G3DSA:2.10.70.10 Complement Module 318 373 0.0000000
5 g10551.t1 PANTHER PTHR19325 COMPLEMENT COMPONENT-RELATED SUSHI DOMAIN-CONTAINING 2 380 0.0000000
6 g10551.t1 PANTHER PTHR19325:SF531 HIG-ANCHORING SCAFFOLD PROTEIN, ISOFORM G 2 380 0.0000000
4 g10551.t1 Pfam PF00084 Sushi repeat (SCR repeat) 150 192 0.0000007
3 g10551.t1 Pfam PF00084 Sushi repeat (SCR repeat) 218 255 0.0002600
2 g10551.t1 Pfam PF00084 Sushi repeat (SCR repeat) 260 314 0.0000000
1 g10551.t1 Pfam PF00084 Sushi repeat (SCR repeat) 318 373 0.0000000
25 g10551.t1 ProSiteProfiles PS50923 Sushi/CCP/SCR domain profile. 1 23 6.2830000
22 g10551.t1 ProSiteProfiles PS50923 Sushi/CCP/SCR domain profile. 137 194 10.1770000
24 g10551.t1 ProSiteProfiles PS50923 Sushi/CCP/SCR domain profile. 195 257 10.0010000
23 g10551.t1 ProSiteProfiles PS50923 Sushi/CCP/SCR domain profile. 258 316 11.3790000
21 g10551.t1 ProSiteProfiles PS50923 Sushi/CCP/SCR domain profile. 317 375 9.8050000
15 g10551.t1 SMART SM00032 CCP_2 139 192 0.0000000
12 g10551.t1 SMART SM00032 CCP_2 197 255 0.0000025
14 g10551.t1 SMART SM00032 CCP_2 260 314 0.0000000
13 g10551.t1 SMART SM00032 CCP_2 318 373 0.0000000
7 g10551.t1 SUPERFAMILY SSF48726 Immunoglobulin 55 165 0.0000039
10 g10551.t1 SUPERFAMILY SSF57535 Complement control module/SCR domain 137 203 0.0000000
8 g10551.t1 SUPERFAMILY SSF57535 Complement control module/SCR domain 219 269 0.0000000
9 g10551.t1 SUPERFAMILY SSF57535 Complement control module/SCR domain 258 327 0.0000000
11 g10551.t1 SUPERFAMILY SSF57535 Complement control module/SCR domain 316 374 0.0000000

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

Pathway

  • This transcript belongs to the following pathways

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