Rroxscaffold_7G00176430

Chloroplast stem-loop binding protein of 41 kDa a

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000007
OG0016578
Physical Location & Seq
Forward (+)
15894581 .. 15896862
2282 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_7G00176430.1

Sequence Viewer

Length: 1218 bp
ATGGCCACTCTTGCTTCATCATCACCATCATCCTCTGTGCTCTTCTCCTCTCCACACTCCAACCTCACTCCACCTTCTCTCTCTCCTTCACGCCTCTCTCTCTCCTCTTCCTCCCACCTCTCCACCACTCTCTCCTCTTCCCTCTCAGTTTCTCGTTCTTTTGTCACATACCCTACAACTTCAAGGCGCTTCAGCCCTAGTTCCTTCAGTGTCAAGGCTATTGCTGCAGACAAGAAGAAGGTTCTGATCGTCAACACCAACAGTGGTGGTCATGCAGTCATTGGATTCTACTTTGCAAAAGAGCTTCTGGGTTCTGGCCATGAGGTCACCATTATGACTGTTGGTGAAGAAAGCTCAGACAAGATGAAGAAGACCCCATTCACCAGATTCTCGGAAATTGTAAGTGCTGGAGGGAAGACAGTGTGGGGAGAACCAGCAGACATAGCTAAGGTTTTGGAAGGATCAGCGTTTGATGTTGTGTTGGATAACAATGGCAAGAGCTTGGACGCAGTGAAGCCTGTGGCTGATTGGGCAAAGAGTTCTGGTGCAAAGCAATTCCTATTTATCAGCAGTGCTGGGATTTATAAGCCAACCGAGGAGCCTCCTCATGTCGAAGGGGATGTCGTTAAAGCTGATGCTGGTCATGTTGCAGTAGAGAAGTACATTGCAGAAGTGTTTGGTAATTGGGCAAGTTTTCGTCCACAATACATGATAGGATCCGGCAACAACAAAGATTGCGAGGAGTGGTTCTTCGATCGAATTGTGAGGGACAGACCAGTTCCAATCCCTGGCTCTGGAATGCAACTCACAGTCATCTCCCATGTTAGGGACTTGTCCTCTATGCTCACTCTAGCCGTTGAGAAGCCAGATGCTGCATCTGGTAACATTTTCAACTGTGTAAGCGACCGTGCTGTGACTCTCGATGGATTGGCAAAACTCTGTGCTCAAGCTGCAGGATGCCCGGTGAACATAGTGCATTATGATCCAAAAGCCGCTGGGGTTGATGCAAAGAAAGCTTTTCCGTTCCGTAACATGCACTTCTATGCAGAACCAAGAGCTGCAAAGGATATCTTGGGATGGAAAAGTACCACAAACCTCACTGAAGACTTGAAAGAGCGATTTGAGGAGTACTTGAAGATTGGGAGAGACAAGAAAGCCATCAAATTTGATTTGGATGATAAGATACTGGAGTCCCTTAAAGTTCCAGTAGCTGTGTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0003674 GO:0003676 GO:0003723 GO:0003727 GO:0005488 GO:0005575 GO:0005576 GO:0005622 GO:0005623 GO:0005737 GO:0005840 GO:0006139 GO:0006355 GO:0006364 GO:0006396 GO:0006412 GO:0006417 GO:0006518 GO:0006725 GO:0006807 GO:0006996 GO:0007623 GO:0008150 GO:0008152 GO:0008187 GO:0008266 GO:0009058 GO:0009059 GO:0009507 GO:0009526 GO:0009532 GO:0009534 GO:0009536 GO:0009570 GO:0009579 GO:0009657 GO:0009658 GO:0009719 GO:0009725 GO:0009735 GO:0009889 GO:0009891 GO:0009893 GO:0009941 GO:0009987 GO:0010033 GO:0010287 GO:0010319 GO:0010467 GO:0010468 GO:0010556 GO:0010557 GO:0010604 GO:0010608 GO:0010628 GO:0016043 GO:0016070 GO:0016072 GO:0019219 GO:0019222 GO:0019538 GO:0022613 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0031967 GO:0031975 GO:0031976 GO:0031984 GO:0032268 GO:0032270 GO:0032544 GO:0032991 GO:0034248 GO:0034250 GO:0034470 GO:0034641 GO:0034645 GO:0034660 GO:0042221 GO:0042254 GO:0043043 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043603 GO:0043604 GO:0044085 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044267 GO:0044271 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464 GO:0045727 GO:0045893 GO:0045935 GO:0046483 GO:0048046 GO:0048511 GO:0048518 GO:0048522 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051173 GO:0051246 GO:0051247 GO:0051252 GO:0051254 GO:0060255 GO:0065007 GO:0071704 GO:0071840 GO:0080090 GO:0090304 GO:0097159 GO:1901360 GO:1901363 GO:1901564 GO:1901566 GO:1901576 GO:1902680 GO:1903506 GO:1903508 GO:1990904 GO:2000112 GO:2001141
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
Epimerase

Protein Analysis

405

Amino Acids

43.72

Weight (kDa)

8.18

Isoelectric Point (pI)

43.53

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Epimerase PF01370 89 - 299 9.2e-08 NAD dependent epimerase/dehydratase family
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Orthologous Genes (Group: OG0016578)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G63140
fragaria_vesca FvH4_2g23570
malus_domestica MD11G1285100.v1.1
prunus_persica Prupe.8G241000_v2.0.a1
pyrus_communis pycom11g25270
rosa_chinensis RchiOBHm_Chr6g0291041
rosa_laevigata RLG00000012152
rosa_multiflora Rmu_sc0004642.1_g000002
rosa_roxburghii Rroxscaffold_7G00176430
rosa_rugosa Rorug06G0217200
rosa_samantha Rh6AG327200 Rh6BG334700 Rh6CG340900
rosa_wichuraiana Rw6G028460

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 585
AccB7I CCANNNNNTGG 1 cut(s) 788
AciI CCGC 1 cut(s) 993
AclWI GGATC 4 cut(s) 469, 711, 724, 977
AcoI YGGCCR 2 cut(s) 3, 316
AcsI RAATTY 1 cut(s) 1163
AcuI CTGAAG 3 cut(s) 175, 190, 1122
AfaI GTAC 3 cut(s) 662, 1087, 1130
AfiI CCNNNNNNNGG 4 cut(s) 788, 794, 825, 826
AgsI TTSAA 4 cut(s) 183, 892, 1111, 1135
AjnI CCWGG 1 cut(s) 787
AluBI AGCT 9 cut(s) 304, 354, 446, 501, 632, 950, 1016, 1058, 1211
AluI AGCT 9 cut(s) 304, 354, 446, 501, 632, 950, 1016, 1058, 1211
Alw21I GWGCWC 2 cut(s) 42, 946
Alw26I GTCTC 1 cut(s) 1140
AlwI GGATC 4 cut(s) 469, 711, 724, 977
AlwNI CAGNNNCTG 2 cut(s) 872, 1211
AoxI GGCC 2 cut(s) 3, 316
ApeKI GCWGC 4 cut(s) 224, 872, 950, 1058
ApoI RAATTY 1 cut(s) 1163
ArsI GACNNNNNNTTYG 2 cut(s) 606, 638
AspLEI GCGC 1 cut(s) 189
AsuC2I CCSGG 1 cut(s) 962
AsuHPI GGTGA 5 cut(s) 15, 319, 356, 373, 976
BaeI ACNNNNGTAYC 2 cut(s) 1175, 1208
BalI TGGCCA 2 cut(s) 5, 318
BamHI GGATCC 1 cut(s) 716
BbsI GAAGAC 3 cut(s) 377, 422, 1110
Bbv12I GWGCWC 2 cut(s) 42, 946
BbvI GCAGC 4 cut(s) 211, 859, 937, 1045
BccI CCATC 4 cut(s) 34, 917, 1071, 1166
BceAI ACGGC 1 cut(s) 839
BciT130I CCWGG 1 cut(s) 789
BcnI CCSGG 1 cut(s) 962
BcoDI GTCTC 1 cut(s) 1140
BfaI CTAG 2 cut(s) 198, 851
BfmI CTRYAG 2 cut(s) 225, 951
BfoI RGCGCY 1 cut(s) 190
BisI GCNGC 5 cut(s) 225, 873, 951, 993, 1059
BlsI GCNGC 5 cut(s) 226, 874, 952, 994, 1060
BmcAI AGTACT 1 cut(s) 1130
Bme1390I CCNGG 2 cut(s) 789, 962
BmiI GGNNCC 2 cut(s) 600, 718
BmrFI CCNGG 2 cut(s) 789, 962
BmsI GCATC 5 cut(s) 625, 859, 884, 947, 994
BpiI GAAGAC 3 cut(s) 377, 422, 1110
BpmI CTGGAG 2 cut(s) 429, 1208
Bpu10I CCTNAGC 1 cut(s) 447
BpuEI CTTGAG 1 cut(s) 930
BpuMI CCSGG 1 cut(s) 962
BsaJI CCNNGG 2 cut(s) 594, 787
Bsc4I CCNNNNNNNGG 4 cut(s) 788, 794, 825, 826
Bse1I ACTGG 3 cut(s) 776, 1191, 1205
Bse3DI GCAATG 1 cut(s) 663
BseBI CCWGG 1 cut(s) 789
BseDI CCNNGG 2 cut(s) 594, 787
BseGI GGATG 5 cut(s) 29, 625, 962, 1082, 1180
BseLI CCNNNNNNNGG 4 cut(s) 788, 794, 825, 826
BseMI GCAATG 1 cut(s) 663
BseMII CTCAG 2 cut(s) 159, 369
BseNI ACTGG 3 cut(s) 776, 1191, 1205
BseRI GAGGAG 7 cut(s) 37, 94, 124, 594, 611, 755, 1139
BseXI GCAGC 4 cut(s) 211, 859, 937, 1045
BseYI CCCAGC 2 cut(s) 575, 995
Bsh1285I CGRYCG 2 cut(s) 757, 907
BshFI GGCC 2 cut(s) 5, 318
BsiEI CGRYCG 2 cut(s) 757, 907
BsiHKAI GWGCWC 2 cut(s) 42, 946
BsiSI CCGG 2 cut(s) 720, 962
BslFI GGGAC 3 cut(s) 782, 842, 1177
BslI CCNNNNNNNGG 4 cut(s) 788, 794, 825, 826
BsmAI GTCTC 1 cut(s) 1140
BsmFI GGGAC 3 cut(s) 782, 842, 1177
BsmI GAATGC 1 cut(s) 804
BsnI GGCC 2 cut(s) 5, 318
Bsp1286I GDGCHC 2 cut(s) 42, 946
Bsp143I GATC 5 cut(s) 246, 461, 716, 754, 982
BspACI CCGC 1 cut(s) 993
BspANI GGCC 2 cut(s) 5, 318
BspCNI CTCAG 2 cut(s) 158, 368
BspLI GGNNCC 2 cut(s) 600, 718
BspMAI CTGCAG 2 cut(s) 229, 955
BspPI GGATC 4 cut(s) 469, 711, 724, 977
BspQI GCTCTTC 1 cut(s) 47
BsrDI GCAATG 1 cut(s) 663
BsrI ACTGG 3 cut(s) 776, 1191, 1205
BssECI CCNNGG 2 cut(s) 594, 787
BssMI GATC 5 cut(s) 246, 461, 716, 754, 982
Bst2UI CCWGG 1 cut(s) 789
Bst4CI ACNGT 6 cut(s) 263, 340, 421, 811, 896, 908
Bst6I CTCTTC 3 cut(s) 47, 112, 142
BstDEI CTNAG 3 cut(s) 145, 355, 447
BstEII GGTNACC 1 cut(s) 325
BstF5I GGATG 5 cut(s) 29, 625, 962, 1082, 1180
BstH2I RGCGCY 1 cut(s) 190
BstHHI GCGC 1 cut(s) 189
BstKTI GATC 5 cut(s) 249, 464, 719, 757, 985
BstMAI GTCTC 1 cut(s) 1140
BstMBI GATC 5 cut(s) 246, 461, 716, 754, 982
BstMCI CGRYCG 2 cut(s) 757, 907
BstMWI GCNNNNNNNGC 6 cut(s) 11, 224, 443, 530, 950, 1013
BstNI CCWGG 1 cut(s) 789
BstNSI RCATGY 1 cut(s) 1036
BstPI GGTNACC 1 cut(s) 325
BstSCI CCNGG 2 cut(s) 787, 960
BstSFI CTRYAG 2 cut(s) 225, 951
BstV1I GCAGC 4 cut(s) 211, 859, 937, 1045
BstV2I GAAGAC 3 cut(s) 377, 422, 1110
BstX2I RGATCY 1 cut(s) 716
BstYI RGATCY 1 cut(s) 716
BsuRI GGCC 2 cut(s) 5, 318
BtsCI GGATG 5 cut(s) 29, 625, 962, 1082, 1180
BtsI GCAGTG 2 cut(s) 516, 577
BtsIMutI CAGTG 6 cut(s) 214, 268, 426, 516, 577, 1098
CaiI CAGNNNCTG 2 cut(s) 872, 1211
CfoI GCGC 1 cut(s) 189
CseI GACGC 1 cut(s) 515
Csp6I GTAC 3 cut(s) 661, 1086, 1129
CspCI CAANNNNNGTGG 2 cut(s) 247, 282
CviAII CATG 7 cut(s) 272, 320, 608, 644, 709, 821, 1033
CviQI GTAC 3 cut(s) 661, 1086, 1129
DdeI CTNAG 3 cut(s) 145, 355, 447
DpnI GATC 5 cut(s) 248, 463, 718, 756, 984
DpnII GATC 5 cut(s) 246, 461, 716, 754, 982
EaeI YGGCCR 2 cut(s) 3, 316
Eam1104I CTCTTC 3 cut(s) 47, 112, 142
EarI CTCTTC 3 cut(s) 47, 112, 142
Eco32I GATATC 1 cut(s) 1069
Eco57I CTGAAG 3 cut(s) 175, 190, 1122
Eco91I GGTNACC 1 cut(s) 325
EcoO65I GGTNACC 1 cut(s) 325
EcoRII CCWGG 1 cut(s) 787
EcoRV GATATC 1 cut(s) 1069
FaeI CATG 7 cut(s) 275, 323, 611, 647, 712, 824, 1036
FalI AAGNNNNNCTT 2 cut(s) 1055, 1087
FaqI GGGAC 3 cut(s) 782, 842, 1177
FatI CATG 7 cut(s) 271, 319, 607, 643, 708, 820, 1032
Fnu4HI GCNGC 5 cut(s) 225, 873, 951, 993, 1059
FokI GGATG 5 cut(s) 16, 632, 969, 1089, 1187
Fsp4HI GCNGC 5 cut(s) 225, 873, 951, 993, 1059
FspBI CTAG 2 cut(s) 198, 851
GlaI GCGC 1 cut(s) 188
GluI GCNGC 5 cut(s) 225, 873, 951, 993, 1059
GsaI CCCAGC 2 cut(s) 579, 999
GsuI CTGGAG 2 cut(s) 429, 1208
HaeII RGCGCY 1 cut(s) 190
HaeIII GGCC 2 cut(s) 5, 318
HapII CCGG 2 cut(s) 720, 962
HgaI GACGC 1 cut(s) 515
HhaI GCGC 1 cut(s) 189
Hin1II CATG 7 cut(s) 275, 323, 611, 647, 712, 824, 1036
Hin6I GCGC 1 cut(s) 187
HinP1I GCGC 1 cut(s) 187
HincII GTYRAC 1 cut(s) 253
HindII GTYRAC 1 cut(s) 253
HindIII AAGCTT 1 cut(s) 1014
HinfI GANTC 4 cut(s) 285, 387, 916, 1190
HpaII CCGG 2 cut(s) 720, 962
HphI GGTGA 5 cut(s) 15, 319, 356, 373, 976
Hpy166II GTNNAC 3 cut(s) 253, 701, 967
Hpy188I TCNGA 3 cut(s) 246, 358, 394
Hpy188III TCNNGA 2 cut(s) 795, 920
Hpy8I GTNNAC 3 cut(s) 253, 701, 967
HpyAV CCTTC 6 cut(s) 84, 96, 214, 232, 452, 608
HpyCH4III ACNGT 6 cut(s) 263, 340, 421, 811, 896, 908
HpyF10VI GCNNNNNNNGC 6 cut(s) 11, 224, 443, 530, 950, 1013
HpyF3I CTNAG 3 cut(s) 145, 355, 447
Hsp92II CATG 7 cut(s) 275, 323, 611, 647, 712, 824, 1036
HspAI GCGC 1 cut(s) 187
Kzo9I GATC 5 cut(s) 246, 461, 716, 754, 982
LguI GCTCTTC 1 cut(s) 47
LmnI GCTCC 1 cut(s) 598
Lsp1109I GCAGC 4 cut(s) 211, 859, 937, 1045
LweI GCATC 5 cut(s) 625, 859, 884, 947, 994
MaeI CTAG 2 cut(s) 198, 851
MaeIII GTNAC 5 cut(s) 163, 325, 881, 913, 1028
MalI GATC 5 cut(s) 248, 463, 718, 756, 984
MboI GATC 5 cut(s) 246, 461, 716, 754, 982
MflI RGATCY 1 cut(s) 716
MhlI GDGCHC 2 cut(s) 42, 946
MlsI TGGCCA 2 cut(s) 5, 318
MluCI AATT 5 cut(s) 396, 554, 682, 759, 1163
MluNI TGGCCA 2 cut(s) 5, 318
MlyI GAGTC 2 cut(s) 910, 1199
MmeI TCCRAC 2 cut(s) 84, 462
Mox20I TGGCCA 2 cut(s) 5, 318
MscI TGGCCA 2 cut(s) 5, 318
MseI TTAA 2 cut(s) 627, 1197
MslI CAYNNNNRTG 2 cut(s) 332, 1041
Msp20I TGGCCA 2 cut(s) 5, 318
MspA1I CMGCKG 1 cut(s) 995
MspI CCGG 2 cut(s) 720, 962
MspR9I CCNGG 2 cut(s) 789, 962
Mva1269I GAATGC 1 cut(s) 804
MvaI CCWGG 1 cut(s) 789
MwoI GCNNNNNNNGC 6 cut(s) 11, 224, 443, 530, 950, 1013
NciI CCSGG 1 cut(s) 962
NdeII GATC 5 cut(s) 246, 461, 716, 754, 982
NlaIII CATG 7 cut(s) 275, 323, 611, 647, 712, 824, 1036
NlaIV GGNNCC 2 cut(s) 600, 718
NmuCI GTSAC 3 cut(s) 163, 325, 913
NspI RCATGY 1 cut(s) 1036
PciSI GCTCTTC 1 cut(s) 47
PctI GAATGC 1 cut(s) 804
PfeI GAWTC 2 cut(s) 285, 387
PflMI CCANNNNNTGG 1 cut(s) 788
PkrI GCNGC 5 cut(s) 226, 874, 952, 994, 1060
Ple19I CGATCG 1 cut(s) 757
PleI GAGTC 2 cut(s) 910, 1198
PpsI GAGTC 2 cut(s) 910, 1198
PsiI TTATAA 1 cut(s) 585
Psp6I CCWGG 1 cut(s) 787
PspEI GGTNACC 1 cut(s) 325
PspFI CCCAGC 2 cut(s) 575, 995
PspGI CCWGG 1 cut(s) 787
PspN4I GGNNCC 2 cut(s) 600, 718
PstI CTGCAG 2 cut(s) 229, 955
PstNI CAGNNNCTG 2 cut(s) 872, 1211
PsuI RGATCY 1 cut(s) 716
PvuI CGATCG 1 cut(s) 757
RsaI GTAC 3 cut(s) 662, 1087, 1130
RsaNI GTAC 3 cut(s) 661, 1086, 1129
RseI CAYNNNNRTG 2 cut(s) 332, 1041
SapI GCTCTTC 1 cut(s) 47
SaqAI TTAA 2 cut(s) 627, 1197
SatI GCNGC 5 cut(s) 225, 873, 951, 993, 1059
Sau3AI GATC 5 cut(s) 246, 461, 716, 754, 982
ScaI AGTACT 1 cut(s) 1130
SchI GAGTC 2 cut(s) 910, 1199
ScrFI CCNGG 2 cut(s) 789, 962
SduI GDGCHC 2 cut(s) 42, 946
SfaNI GCATC 5 cut(s) 625, 859, 884, 947, 994
SfcI CTRYAG 2 cut(s) 225, 951
SmiMI CAYNNNNRTG 2 cut(s) 332, 1041
SmlI CTYRAG 1 cut(s) 945
SmoI CTYRAG 1 cut(s) 945
Sse9I AATT 5 cut(s) 396, 554, 682, 759, 1163
SsiI CCGC 1 cut(s) 993
SspMI CTAG 2 cut(s) 198, 851
StyD4I CCNGG 2 cut(s) 787, 960
TaaI ACNGT 6 cut(s) 263, 340, 421, 811, 896, 908
TaqI TCGA 4 cut(s) 612, 753, 757, 921
TasI AATT 5 cut(s) 396, 554, 682, 759, 1163
TatI WGTACW 2 cut(s) 660, 1128
TauI GCSGC 1 cut(s) 995
TfiI GAWTC 2 cut(s) 285, 387
Tru1I TTAA 2 cut(s) 627, 1197
Tru9I TTAA 2 cut(s) 627, 1197
TscAI CASTG 6 cut(s) 214, 268, 426, 516, 577, 1105
TseFI GTSAC 3 cut(s) 163, 325, 913
TseI GCWGC 4 cut(s) 224, 872, 950, 1058
Tsp45I GTSAC 3 cut(s) 163, 325, 913
TspDTI ATGAA 2 cut(s) 6, 380
TspGWI ACGGA 2 cut(s) 1011, 1016
TspRI CASTG 6 cut(s) 214, 268, 426, 516, 577, 1105
Van91I CCANNNNNTGG 1 cut(s) 788
XapI RAATTY 1 cut(s) 1163
XceI RCATGY 1 cut(s) 1036
XspI CTAG 2 cut(s) 198, 851
ZrmI AGTACT 1 cut(s) 1130
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.