Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi07g01102 ATGGCGGAAGAGAGATTGACTGGTGTTGTTCAGTGGTTTAACGATTCCAAAGGCTTCGGCTTCATCAAGCCAGATGTAGAAGGTCCGGATCTGTTTGTTCATCAATCCTCCATTAAATCCGATGGTTACAGGAGCCTTGTCGTCGGAGATCATGTCGAGTTTCAGATCGCTCCTGGTGATGATGGCAAATCGAAAGCCATTGAGGTCGTTGCGCTCGATGGATCTTCGGGAAATCGGAGGGATAACTTTGGTGGTGGTGGTGGTGGAAGGGGTGGCCGCGGCGGAGGTGGCGGTGGAGGTTATGGGTTTGGTGGTTGGAGGGGAGGTGATAGGCGGAATGGGAACAGTGGGGCCGGTGGGGGTGGGTGTTATCAATGCGGTGAGCAAGGGCATTTGGCGAGAGACTGTACTCGTGCTAGTAACCGCGGCGGTGGCGGCGGAGGTGGCGGTGGGTGTTTTACTTGCGGTGAAGTTGGCCACTTAGCGAGGGATTGTCCACGAGGAAACAGTGGCGGAGGTGGAGGCGGCGGTGCCGGGGCTTGCTATAATTGTGGTGGTTTTGGGCATTTGGCTAGGGATTGCAATAGGGGTGGGGCTGGAGGTGGAAGTGGTGGTGGTGGTGGTGGTGGTGGTGGTGGTTGCTTTAATTGTGGGGAATATGGGCATATAGCCAGAGATTGCCAGAATGAAAGCCGTGGCAGCGGCGGTGGCGGCGGAAGATTTGGTGGCGGCGGTGGCGGTGGCTCAAACACTTGCTTCAATTGTGGGAAATCGGGGCATTTTGCTAGGGAGTGTCCTGATGCACCTTGA 810 56.05 MAEERLTGVVQWFNDSKGFGFIKPDVEGPDLFVHQSSIKSDGYRSLVVGDHVEFQIAPGDDGKSKAIEVVALDGSSGNRRDNFGGGGGGRGGRGGGGGGGYGFGGWRGGDRRNGNSGAGGGGCYQCGEQGHLARDCTRASNRGGGGGGGGGCFTCGEVGHLARDCPRGNSGGGGGGGAGACYNCGGFGHLARDCNRGGAGGGSGGGGGGGGGGCFNCGEYGHIARDCQNESRGSGGGGGRFGGGGGGGSNTCFNCGKSGHFARECPDAP 269
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
7 16416031 16416840 - Lsi07G011020.1 Lsi07g01102 667524

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi07g01102 269 PANTHER COLD SHOCK PROTEIN 2 139 268 - -
Lsi07g01102 269 SMART c2hcfinal6 213 229 IPR001878 GO:0003676|GO:0008270
Lsi07g01102 269 SMART c2hcfinal6 122 138 IPR001878 GO:0003676|GO:0008270
Lsi07g01102 269 SMART c2hcfinal6 180 196 IPR001878 GO:0003676|GO:0008270
Lsi07g01102 269 SMART c2hcfinal6 151 167 IPR001878 GO:0003676|GO:0008270
Lsi07g01102 269 SMART c2hcfinal6 251 267 IPR001878 GO:0003676|GO:0008270
Lsi07g01102 269 SUPERFAMILY Retrovirus zinc finger-like domains 113 169 IPR036875 GO:0003676|GO:0008270
Lsi07g01102 269 PANTHER COLD SHOCK DOMAIN PROTEIN 2 1 113 - -
Lsi07g01102 269 PANTHER COLD SHOCK DOMAIN PROTEIN 2 113 145 - -
Lsi07g01102 269 ProSitePatterns Cold-shock (CSD) domain signature. 19 38 IPR019844 -
Lsi07g01102 269 Gene3D - 147 174 - -
Lsi07g01102 269 Gene3D - 210 236 - -
Lsi07g01102 269 Gene3D - 176 202 - -
Lsi07g01102 269 Gene3D - 246 269 - -
Lsi07g01102 269 SUPERFAMILY Retrovirus zinc finger-like domains 233 267 IPR036875 GO:0003676|GO:0008270
Lsi07g01102 269 Pfam Zinc knuckle 213 228 IPR001878 GO:0003676|GO:0008270
Lsi07g01102 269 Pfam Zinc knuckle 151 166 IPR001878 GO:0003676|GO:0008270
Lsi07g01102 269 Pfam Zinc knuckle 180 194 IPR001878 GO:0003676|GO:0008270
Lsi07g01102 269 Pfam Zinc knuckle 122 137 IPR001878 GO:0003676|GO:0008270
Lsi07g01102 269 Pfam Zinc knuckle 250 266 IPR001878 GO:0003676|GO:0008270
Lsi07g01102 269 Gene3D - 109 146 - -
Lsi07g01102 269 ProSiteProfiles Zinc finger CCHC-type profile. 152 167 IPR001878 GO:0003676|GO:0008270
Lsi07g01102 269 PRINTS Cold shock protein signature 29 38 IPR002059 GO:0003676
Lsi07g01102 269 PRINTS Cold shock protein signature 8 23 IPR002059 GO:0003676
Lsi07g01102 269 PRINTS Cold shock protein signature 44 62 IPR002059 GO:0003676
Lsi07g01102 269 ProSiteProfiles Zinc finger CCHC-type profile. 214 229 IPR001878 GO:0003676|GO:0008270
Lsi07g01102 269 PANTHER COLD SHOCK DOMAIN PROTEIN 2 139 268 - -
Lsi07g01102 269 Pfam 'Cold-shock' DNA-binding domain 7 70 IPR002059 GO:0003676
Lsi07g01102 269 PANTHER COLD SHOCK PROTEIN 2 1 113 - -
Lsi07g01102 269 PANTHER COLD SHOCK PROTEIN 2 113 145 - -
Lsi07g01102 269 ProSiteProfiles Zinc finger CCHC-type profile. 252 267 IPR001878 GO:0003676|GO:0008270
Lsi07g01102 269 PRINTS Eggshell protein signature 237 255 - -
Lsi07g01102 269 PRINTS Eggshell protein signature 87 98 - -
Lsi07g01102 269 PRINTS Eggshell protein signature 199 209 - -
Lsi07g01102 269 PRINTS Eggshell protein signature 168 183 - -
Lsi07g01102 269 SUPERFAMILY Retrovirus zinc finger-like domains 172 230 IPR036875 GO:0003676|GO:0008270
Lsi07g01102 269 Gene3D - 1 70 IPR012340 -
Lsi07g01102 269 CDD CSP_CDS 7 69 IPR002059 GO:0003676
Lsi07g01102 269 SUPERFAMILY Nucleic acid-binding proteins 4 74 IPR012340 -
Lsi07g01102 269 ProSiteProfiles Cold-shock (CSD) domain profile. 5 71 IPR002059 GO:0003676
Lsi07g01102 269 ProSiteProfiles Zinc finger CCHC-type profile. 181 194 IPR001878 GO:0003676|GO:0008270
Lsi07g01102 269 ProSiteProfiles Zinc finger CCHC-type profile. 123 138 IPR001878 GO:0003676|GO:0008270
Lsi07g01102 269 SMART csp_8 7 72 IPR011129 GO:0003676
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi07g01102 K09250 CNBP; cellular nucleic acid-binding protein - csv:101216334 341.658
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi06g01264 Lsi-Chr6:23221553 Lsi07g01102 Lsi-Chr7:16416031 7.47E-06 dispersed
Lsi07g01102 Lsi-Chr7:16416031 Lsi11g01131 Lsi-Chr11:19757390 3.68E-10 dispersed
       

Deco-Alignment

Select Vvi1 Blo1 Blo2 Bda1 Bda2 Bpe1 Bpe2 Bma1 Bma2 Cmo1 Cmo2 Cma1 Cma2 Car1 Car2 Sed1 Cpe1 Cpe2 Bhi1 Tan1 Cmetu1 Lac1 Hepe1 Mch1 Lcy1 Cla1 Cam1 Cec1 Cco1 Clacu1 Cmu1 Cre1 Cone1 Cone2 Cone3 Cone4 Lsi1 Csa1 Chy1 Cme1 Blo3 Blo4 Bda3 Bda4 Bpe3 Bpe4 Bma3 Bma4 Sed2 Cmo3 Cmo4 Cma3 Cma4 Car3 Car4 Cpe3 Cpe4 Bhi2 Tan2 Cmetu2 Lac2 Hepe2 Mch2 Lcy2 Cla2 Cam2 Cec2 Cco2 Clacu2 Cmu2 Cre2 Lsi2 Csa2 Chy2 Cme2
Vvi4g1119 Blo04g00883 . . . Bpe15g00473 Bpe13g00413 . . . . . . . . . . . . . . . . . . . . . . . . . Cone8ag0853 Cone12ag0714 Cone6ag1686 . . . . . . . Bda11g01834 . . . Bma03g00959 Bma06g00094 . . . Cma16g01239 . . . . . . . . . . . . . . . . . . . Lsi07g01102 . . .
       

Syn-Orthogroups

Select Orthogroup Bda Bhi Blo Bma Bpe Cam Car Cco Cec Chy Cla Clacu Cma Cme Cmetu Cmo Cmu Cone Cpe Cre Csa HCH Hepe Lac Lcy Lsi Mch Sed Tan Vvi Total
OG0006925 2 0 0 2 2 1 2 1 1 1 1 1 2 1 1 2 1 3 2 1 1 1 1 1 1 1 1 1 1 0 36
       

Regulatory proteins

Select Gene Hmm_acc Hmm_name Score E-value Regulatory Factors Family
25669 PF00313 CSD 1.10E-22 CL0021 Lsi TF
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Lsi07g01102 Lsi_Chr07 FPKM 9.250172 9.831908 0.408785 0.277278 27.393845 25.779808 27.047607 0.0 0.0 0.0