Rh6BG334700

Chloroplast stem-loop binding protein of 41 kDa a

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6B
OG0016578
Physical Location & Seq
Reverse (-)
56822167 .. 56824187
2021 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6BG334700.1

Sequence Viewer

Length: 1215 bp
ATGGCCACTCTTTCTTCATCATCATCATCCTCTGTGCTCTTCTCCTCTCCACACTCCAACATCACTCCACCTTCTCTCTCTCCTTCATGCCTCTCTCTCTCCTCTTCCTCCCACCTCTCCACCACTCTCTCCTCTTCCCTCTCAGTTTCTCATTCTTTTGTCACATACCCTACAACTTCAAGGCGCTTCAGCCCTAGTTCCTTCAGTGTCAAGGCTATTGCTGCAGACAAGAAGAAGGTTCTGATCGTCAACACCAACAGTGGTGGTCATGCAGTCATTGGATTCTACTTTGCAAAAGAGCTTCTGGGCTCTGGCCATGAGGTCACCATTATGACTGTTGGTGAAGAAAGCTCAGACAAGATGAAGAAGACCCCATTCACCAGATTCTCGGAAATTGTAAGTGCTGGAGGGAAGACAGTGTGGGGAGAACCAGCAGAAATAGCTAAGGTTTTGGAAGGATCAGCATTTGATGTTGTGTTGGATAACAATGGCAAGAACTTGGACGCAGTGAAGCCTGTGGCTGATTGGGCAAAGAGTTCTGGTGCAAAGCAATTCCTATTTATCAGCAGTGCTGGGATTTATAAGCCAACCGAGGAGCCTCCTCATGTCGAAGGGGATGTCGTTAAAGCTGATGCTGGTCATGTTGCAGTAGAGAAGTACATTGCAGAAGTGTTTGGTAATTGGGCAAGTTTTCGTCCACAATACATGATAGGATCCGGCAACAACAAAGATTGCGAGGAGTGGTTCTTCGATCGAATTGTGAGGGACAGACCAGTTCCAATCCCTGGCTCCGGAATGCAACTCACAGTCATCTCCCATGTTAGGGACTTGTCCTCTATGCTTACTCTAGCCGTTGCGAAGCCAGATGCTGCATCTGGTAATATTTTCAACTGTGTAAGCGACCGTGCTGTGACTCTCGATGGATTGGCAAAACTCTGTGCTCAAGCTGCAGGACGCCCGGTGAACATAGTGCATTATGATCCAAAAGCTGCTGGGGTTGATGCAAAGAAAGCTTTTCCGTTCCGTAACATGCACTTCTATGCAGAACCAAGAGCTGCAAAGGATATCTTGGGATGGAAAAGTACCACAAACCTCACTGAAGACTTGAAAGAGAGATTTGAGGAGTACTTGAAGATTGGGAGAGACAAGAAAGCCATCAAATTTGATTTGGATGATAAGATACTGGAGTCCCTTAAAGTTCCAGTAGCAGTGTGA
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

404

Amino Acids

43.6

Weight (kDa)

8.18

Isoelectric Point (pI)

44.02

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Epimerase PF01370 88 - 298 2.4e-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) 582
AccB7I CCANNNNNTGG 1 cut(s) 785
AccIII TCCGGA 1 cut(s) 791
AclWI GGATC 4 cut(s) 466, 708, 721, 974
AcoI YGGCCR 2 cut(s) 3, 313
AcsI RAATTY 1 cut(s) 1160
AcuI CTGAAG 3 cut(s) 172, 187, 1119
AcyI GRCGYC 1 cut(s) 955
AfaI GTAC 3 cut(s) 659, 1084, 1127
AfiI CCNNNNNNNGG 4 cut(s) 785, 791, 822, 823
AgsI TTSAA 4 cut(s) 180, 889, 1108, 1132
AjnI CCWGG 1 cut(s) 784
AluBI AGCT 8 cut(s) 301, 351, 443, 629, 947, 989, 1013, 1055
AluI AGCT 8 cut(s) 301, 351, 443, 629, 947, 989, 1013, 1055
Alw21I GWGCWC 2 cut(s) 39, 943
Alw26I GTCTC 1 cut(s) 1137
AlwI GGATC 4 cut(s) 466, 708, 721, 974
AlwNI CAGNNNCTG 1 cut(s) 869
Aor13HI TCCGGA 1 cut(s) 791
AoxI GGCC 2 cut(s) 3, 313
ApeKI GCWGC 5 cut(s) 221, 869, 947, 989, 1055
ApoI RAATTY 1 cut(s) 1160
ArsI GACNNNNNNTTYG 2 cut(s) 603, 635
AspLEI GCGC 1 cut(s) 186
AsuC2I CCSGG 1 cut(s) 959
AsuHPI GGTGA 4 cut(s) 316, 353, 370, 973
BaeI ACNNNNGTAYC 2 cut(s) 1172, 1205
BalI TGGCCA 2 cut(s) 5, 315
BamHI GGATCC 1 cut(s) 713
BanII GRGCYC 1 cut(s) 311
BbsI GAAGAC 3 cut(s) 374, 419, 1107
Bbv12I GWGCWC 2 cut(s) 39, 943
BbvI GCAGC 5 cut(s) 208, 856, 934, 976, 1042
BccI CCATC 3 cut(s) 914, 1068, 1163
BceAI ACGGC 1 cut(s) 836
BciT130I CCWGG 1 cut(s) 786
BcnI CCSGG 1 cut(s) 959
BcoDI GTCTC 1 cut(s) 1137
BfaI CTAG 2 cut(s) 195, 848
BfmI CTRYAG 2 cut(s) 222, 948
BfoI RGCGCY 1 cut(s) 187
BisI GCNGC 5 cut(s) 222, 870, 948, 990, 1056
BlsI GCNGC 5 cut(s) 223, 871, 949, 991, 1057
BmcAI AGTACT 1 cut(s) 1127
Bme1390I CCNGG 2 cut(s) 786, 959
BmiI GGNNCC 3 cut(s) 597, 715, 790
BmrFI CCNGG 2 cut(s) 786, 959
BmsI GCATC 4 cut(s) 622, 856, 881, 991
BpiI GAAGAC 3 cut(s) 374, 419, 1107
BpmI CTGGAG 2 cut(s) 426, 1205
Bpu10I CCTNAGC 1 cut(s) 444
BpuEI CTTGAG 1 cut(s) 927
BpuMI CCSGG 1 cut(s) 959
BsaHI GRCGYC 1 cut(s) 955
BsaJI CCNNGG 2 cut(s) 591, 784
BsaWI WCCGGW 1 cut(s) 791
Bsc4I CCNNNNNNNGG 4 cut(s) 785, 791, 822, 823
Bse1I ACTGG 3 cut(s) 773, 1188, 1202
Bse3DI GCAATG 1 cut(s) 660
BseAI TCCGGA 1 cut(s) 791
BseBI CCWGG 1 cut(s) 786
BseDI CCNNGG 2 cut(s) 591, 784
BseGI GGATG 4 cut(s) 26, 622, 1079, 1177
BseLI CCNNNNNNNGG 4 cut(s) 785, 791, 822, 823
BseMI GCAATG 1 cut(s) 660
BseMII CTCAG 2 cut(s) 156, 366
BseNI ACTGG 3 cut(s) 773, 1188, 1202
BseRI GAGGAG 7 cut(s) 34, 91, 121, 591, 608, 752, 1136
BseXI GCAGC 5 cut(s) 208, 856, 934, 976, 1042
BseYI CCCAGC 2 cut(s) 572, 992
Bsh1285I CGRYCG 2 cut(s) 754, 904
BshFI GGCC 2 cut(s) 5, 315
BsiEI CGRYCG 2 cut(s) 754, 904
BsiHKAI GWGCWC 2 cut(s) 39, 943
BsiSI CCGG 3 cut(s) 717, 792, 959
BslFI GGGAC 3 cut(s) 779, 839, 1174
BslI CCNNNNNNNGG 4 cut(s) 785, 791, 822, 823
BsmAI GTCTC 1 cut(s) 1137
BsmFI GGGAC 3 cut(s) 779, 839, 1174
BsmI GAATGC 1 cut(s) 801
BsnI GGCC 2 cut(s) 5, 315
Bsp1286I GDGCHC 3 cut(s) 39, 311, 943
Bsp13I TCCGGA 1 cut(s) 791
Bsp143I GATC 5 cut(s) 243, 458, 713, 751, 979
BspANI GGCC 2 cut(s) 5, 315
BspCNI CTCAG 2 cut(s) 155, 365
BspEI TCCGGA 1 cut(s) 791
BspLI GGNNCC 3 cut(s) 597, 715, 790
BspMAI CTGCAG 2 cut(s) 226, 952
BspPI GGATC 4 cut(s) 466, 708, 721, 974
BspQI GCTCTTC 1 cut(s) 44
BsrDI GCAATG 1 cut(s) 660
BsrI ACTGG 3 cut(s) 773, 1188, 1202
BssECI CCNNGG 2 cut(s) 591, 784
BssMI GATC 5 cut(s) 243, 458, 713, 751, 979
BssNI GRCGYC 1 cut(s) 955
Bst2UI CCWGG 1 cut(s) 786
Bst4CI ACNGT 6 cut(s) 260, 337, 418, 808, 893, 905
Bst6I CTCTTC 3 cut(s) 44, 109, 139
BstACI GRCGYC 1 cut(s) 955
BstDEI CTNAG 3 cut(s) 142, 352, 444
BstEII GGTNACC 1 cut(s) 322
BstF5I GGATG 4 cut(s) 26, 622, 1079, 1177
BstH2I RGCGCY 1 cut(s) 187
BstHHI GCGC 1 cut(s) 186
BstKTI GATC 5 cut(s) 246, 461, 716, 754, 982
BstMAI GTCTC 1 cut(s) 1137
BstMBI GATC 5 cut(s) 243, 458, 713, 751, 979
BstMCI CGRYCG 2 cut(s) 754, 904
BstMWI GCNNNNNNNGC 5 cut(s) 221, 440, 527, 947, 1010
BstNI CCWGG 1 cut(s) 786
BstNSI RCATGY 1 cut(s) 1033
BstPI GGTNACC 1 cut(s) 322
BstSCI CCNGG 2 cut(s) 784, 957
BstSFI CTRYAG 2 cut(s) 222, 948
BstV1I GCAGC 5 cut(s) 208, 856, 934, 976, 1042
BstV2I GAAGAC 3 cut(s) 374, 419, 1107
BstX2I RGATCY 1 cut(s) 713
BstYI RGATCY 1 cut(s) 713
BsuRI GGCC 2 cut(s) 5, 315
BtsCI GGATG 4 cut(s) 26, 622, 1079, 1177
BtsI GCAGTG 3 cut(s) 513, 574, 1215
BtsIMutI CAGTG 7 cut(s) 211, 265, 423, 513, 574, 1095, 1215
CaiI CAGNNNCTG 1 cut(s) 869
CfoI GCGC 1 cut(s) 186
CseI GACGC 2 cut(s) 512, 963
Csp6I GTAC 3 cut(s) 658, 1083, 1126
CspCI CAANNNNNGTGG 2 cut(s) 244, 279
CviAII CATG 8 cut(s) 87, 269, 317, 605, 641, 706, 818, 1030
CviQI GTAC 3 cut(s) 658, 1083, 1126
DdeI CTNAG 3 cut(s) 142, 352, 444
DpnI GATC 5 cut(s) 245, 460, 715, 753, 981
DpnII GATC 5 cut(s) 243, 458, 713, 751, 979
EaeI YGGCCR 2 cut(s) 3, 313
Eam1104I CTCTTC 3 cut(s) 44, 109, 139
EarI CTCTTC 3 cut(s) 44, 109, 139
Eco24I GRGCYC 1 cut(s) 311
Eco32I GATATC 1 cut(s) 1066
Eco57I CTGAAG 3 cut(s) 172, 187, 1119
Eco91I GGTNACC 1 cut(s) 322
EcoO65I GGTNACC 1 cut(s) 322
EcoRII CCWGG 1 cut(s) 784
EcoRV GATATC 1 cut(s) 1066
EcoT38I GRGCYC 1 cut(s) 311
FaeI CATG 8 cut(s) 90, 272, 320, 608, 644, 709, 821, 1033
FalI AAGNNNNNCTT 2 cut(s) 1052, 1084
FaqI GGGAC 3 cut(s) 779, 839, 1174
FatI CATG 8 cut(s) 86, 268, 316, 604, 640, 705, 817, 1029
Fnu4HI GCNGC 5 cut(s) 222, 870, 948, 990, 1056
FokI GGATG 4 cut(s) 13, 629, 1086, 1184
FriOI GRGCYC 1 cut(s) 311
Fsp4HI GCNGC 5 cut(s) 222, 870, 948, 990, 1056
FspBI CTAG 2 cut(s) 195, 848
GlaI GCGC 1 cut(s) 185
GluI GCNGC 5 cut(s) 222, 870, 948, 990, 1056
GsaI CCCAGC 2 cut(s) 576, 996
GsuI CTGGAG 2 cut(s) 426, 1205
HaeII RGCGCY 1 cut(s) 187
HaeIII GGCC 2 cut(s) 5, 315
HapII CCGG 3 cut(s) 717, 792, 959
HgaI GACGC 2 cut(s) 512, 963
HhaI GCGC 1 cut(s) 186
Hin1I GRCGYC 1 cut(s) 955
Hin1II CATG 8 cut(s) 90, 272, 320, 608, 644, 709, 821, 1033
Hin6I GCGC 1 cut(s) 184
HinP1I GCGC 1 cut(s) 184
HincII GTYRAC 1 cut(s) 250
HindII GTYRAC 1 cut(s) 250
HindIII AAGCTT 1 cut(s) 1011
HinfI GANTC 4 cut(s) 282, 384, 913, 1187
HpaII CCGG 3 cut(s) 717, 792, 959
HphI GGTGA 4 cut(s) 316, 353, 370, 973
Hpy166II GTNNAC 3 cut(s) 250, 698, 964
Hpy188I TCNGA 3 cut(s) 243, 355, 391
Hpy188III TCNNGA 2 cut(s) 792, 917
Hpy8I GTNNAC 3 cut(s) 250, 698, 964
HpyAV CCTTC 6 cut(s) 81, 93, 211, 229, 449, 605
HpyCH4III ACNGT 6 cut(s) 260, 337, 418, 808, 893, 905
HpyF10VI GCNNNNNNNGC 5 cut(s) 221, 440, 527, 947, 1010
HpyF3I CTNAG 3 cut(s) 142, 352, 444
Hsp92I GRCGYC 1 cut(s) 955
Hsp92II CATG 8 cut(s) 90, 272, 320, 608, 644, 709, 821, 1033
HspAI GCGC 1 cut(s) 184
Kpn2I TCCGGA 1 cut(s) 791
Kzo9I GATC 5 cut(s) 243, 458, 713, 751, 979
LguI GCTCTTC 1 cut(s) 44
LmnI GCTCC 2 cut(s) 595, 794
Lsp1109I GCAGC 5 cut(s) 208, 856, 934, 976, 1042
LweI GCATC 4 cut(s) 622, 856, 881, 991
MaeI CTAG 2 cut(s) 195, 848
MaeIII GTNAC 4 cut(s) 160, 322, 910, 1025
MalI GATC 5 cut(s) 245, 460, 715, 753, 981
MboI GATC 5 cut(s) 243, 458, 713, 751, 979
MflI RGATCY 1 cut(s) 713
MhlI GDGCHC 3 cut(s) 39, 311, 943
MlsI TGGCCA 2 cut(s) 5, 315
MluCI AATT 5 cut(s) 393, 551, 679, 756, 1160
MluNI TGGCCA 2 cut(s) 5, 315
MlyI GAGTC 2 cut(s) 907, 1196
MmeI TCCRAC 2 cut(s) 81, 459
Mox20I TGGCCA 2 cut(s) 5, 315
MroI TCCGGA 1 cut(s) 791
MscI TGGCCA 2 cut(s) 5, 315
MseI TTAA 2 cut(s) 624, 1194
MslI CAYNNNNRTG 2 cut(s) 329, 1038
Msp20I TGGCCA 2 cut(s) 5, 315
MspI CCGG 3 cut(s) 717, 792, 959
MspR9I CCNGG 2 cut(s) 786, 959
Mva1269I GAATGC 1 cut(s) 801
MvaI CCWGG 1 cut(s) 786
MwoI GCNNNNNNNGC 5 cut(s) 221, 440, 527, 947, 1010
NciI CCSGG 1 cut(s) 959
NdeII GATC 5 cut(s) 243, 458, 713, 751, 979
NlaIII CATG 8 cut(s) 90, 272, 320, 608, 644, 709, 821, 1033
NlaIV GGNNCC 3 cut(s) 597, 715, 790
NmuCI GTSAC 3 cut(s) 160, 322, 910
NspI RCATGY 1 cut(s) 1033
PciSI GCTCTTC 1 cut(s) 44
PctI GAATGC 1 cut(s) 801
PfeI GAWTC 2 cut(s) 282, 384
PflMI CCANNNNNTGG 1 cut(s) 785
PkrI GCNGC 5 cut(s) 223, 871, 949, 991, 1057
Ple19I CGATCG 1 cut(s) 754
PleI GAGTC 2 cut(s) 907, 1195
PpsI GAGTC 2 cut(s) 907, 1195
PsiI TTATAA 1 cut(s) 582
Psp6I CCWGG 1 cut(s) 784
PspEI GGTNACC 1 cut(s) 322
PspFI CCCAGC 2 cut(s) 572, 992
PspGI CCWGG 1 cut(s) 784
PspN4I GGNNCC 3 cut(s) 597, 715, 790
PstI CTGCAG 2 cut(s) 226, 952
PstNI CAGNNNCTG 1 cut(s) 869
PsuI RGATCY 1 cut(s) 713
PvuI CGATCG 1 cut(s) 754
RsaI GTAC 3 cut(s) 659, 1084, 1127
RsaNI GTAC 3 cut(s) 658, 1083, 1126
RseI CAYNNNNRTG 2 cut(s) 329, 1038
SapI GCTCTTC 1 cut(s) 44
SaqAI TTAA 2 cut(s) 624, 1194
SatI GCNGC 5 cut(s) 222, 870, 948, 990, 1056
Sau3AI GATC 5 cut(s) 243, 458, 713, 751, 979
ScaI AGTACT 1 cut(s) 1127
SchI GAGTC 2 cut(s) 907, 1196
ScrFI CCNGG 2 cut(s) 786, 959
SduI GDGCHC 3 cut(s) 39, 311, 943
SfaNI GCATC 4 cut(s) 622, 856, 881, 991
SfcI CTRYAG 2 cut(s) 222, 948
SmiMI CAYNNNNRTG 2 cut(s) 329, 1038
SmlI CTYRAG 1 cut(s) 942
SmoI CTYRAG 1 cut(s) 942
Sse9I AATT 5 cut(s) 393, 551, 679, 756, 1160
SspI AATATT 1 cut(s) 883
SspMI CTAG 2 cut(s) 195, 848
StyD4I CCNGG 2 cut(s) 784, 957
TaaI ACNGT 6 cut(s) 260, 337, 418, 808, 893, 905
TaqI TCGA 4 cut(s) 609, 750, 754, 918
TasI AATT 5 cut(s) 393, 551, 679, 756, 1160
TatI WGTACW 2 cut(s) 657, 1125
TfiI GAWTC 2 cut(s) 282, 384
Tru1I TTAA 2 cut(s) 624, 1194
Tru9I TTAA 2 cut(s) 624, 1194
TscAI CASTG 7 cut(s) 211, 265, 423, 513, 574, 1102, 1215
TseFI GTSAC 3 cut(s) 160, 322, 910
TseI GCWGC 5 cut(s) 221, 869, 947, 989, 1055
Tsp45I GTSAC 3 cut(s) 160, 322, 910
TspDTI ATGAA 3 cut(s) 6, 75, 377
TspGWI ACGGA 2 cut(s) 1008, 1013
TspRI CASTG 7 cut(s) 211, 265, 423, 513, 574, 1102, 1215
Van91I CCANNNNNTGG 1 cut(s) 785
XapI RAATTY 1 cut(s) 1160
XceI RCATGY 1 cut(s) 1033
XspI CTAG 2 cut(s) 195, 848
ZrmI AGTACT 1 cut(s) 1127
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.