Rorug06G0217200

Chloroplast stem-loop binding protein of 41 kDa a

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000006
OG0012509
Physical Location & Seq
Reverse (-)
34727360 .. 34729808
2449 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug06G0217200.1

Sequence Viewer

Length: 486 bp
ATGGTGGCCTCCTCGTCTTCTTCGCTGTCGTCGGACTCGTCGTCTGGGTCTCGGCGCCGTCATCGCCGACACAACCGCAGCCGCCGAGACAAGGATAAAGAAAAAGACAAAGATGCCCTCAAGATCCGAAAGAGGACCAGTCGTAGCTCCCACGCCAAACGACGTCGTAGGCACCGCCACCACCACTCCTCATCTTCTTCTGATTCCTACTCCTCGTCGTCTGATTCCGACGATTCCAGAAATGATAGCTCTTCAGACAGTGAGCCTGAAACATCTAGTCAGTCAAAGAGGCACAAGAAGAATGACAGACAGAAGAAGAGCAAAGAAAAGGACCAGAGCAAGAGTCATCGGCATAAACGTCATAGGAGTAAACTAAAAGAGTACTTTCTGCCTGTTTATGGATTGGCTCTTTTAAATTGGAGCTGGGATCTGCGACATGATTACTGGGCGCTTGATTGGATTGCCTGGATGATGTTTCTGGGTTGA
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

161

Amino Acids

19.11

Weight (kDa)

10.65

Isoelectric Point (pI)

108.2

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Orthologous Genes (Group: OG0012509)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G02800
fragaria_vesca FvH4_2g23580 FvH4_2g23580
malus_domestica MD03G1265000.v1.1 MD11G1285200.v1.1
prunus_persica Prupe.8G241100_v2.0.a1
pyrus_communis pycom03g21210 pycom11g25280 pycom11g25340
rosa_chinensis RchiOBHm_Chr6g0291051
rosa_laevigata RLG00000012151
rosa_multiflora Rmu_sc0004642.1_g000003
rosa_roxburghii Rroxscaffold_7G00176420
rosa_rugosa Rorug06G0217200
rosa_samantha Rh6AG327300 Rh6BG334800 Rh6CG341000 Rh6DG328300
rosa_wichuraiana Rw6G028470

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 166
AccB1I GGYRCC 2 cut(s) 54, 171
AciI CCGC 3 cut(s) 76, 82, 175
AclWI GGATC 2 cut(s) 118, 435
AcuI CTGAAG 1 cut(s) 237
AcyI GRCGYC 2 cut(s) 55, 163
AfaI GTAC 1 cut(s) 383
AfiI CCNNNNNNNGG 2 cut(s) 91, 398
AhdI GACNNNNNGTC 1 cut(s) 40
AjnI CCWGG 1 cut(s) 464
AluBI AGCT 3 cut(s) 147, 249, 423
AluI AGCT 3 cut(s) 147, 249, 423
Alw26I GTCTC 2 cut(s) 54, 81
AlwI GGATC 2 cut(s) 118, 435
AoxI GGCC 1 cut(s) 6
ApeKI GCWGC 1 cut(s) 78
AspLEI GCGC 2 cut(s) 57, 451
AspS9I GGNCC 2 cut(s) 135, 331
AvaII GGWCC 2 cut(s) 135, 331
BanI GGYRCC 2 cut(s) 54, 171
BbsI GAAGAC 1 cut(s) 9
BbvI GCAGC 1 cut(s) 90
BceAI ACGGC 1 cut(s) 42
BciT130I CCWGG 1 cut(s) 466
BcoDI GTCTC 2 cut(s) 54, 81
BfaI CTAG 1 cut(s) 276
BfoI RGCGCY 2 cut(s) 58, 452
BisI GCNGC 2 cut(s) 79, 82
BlsI GCNGC 2 cut(s) 80, 83
BmcAI AGTACT 1 cut(s) 383
Bme1390I CCNGG 1 cut(s) 466
Bme18I GGWCC 2 cut(s) 135, 331
BmeRI GACNNNNNGTC 1 cut(s) 40
BmgT120I GGNCC 2 cut(s) 135, 331
BmiI GGNNCC 2 cut(s) 56, 173
BmrFI CCNGG 1 cut(s) 466
BmrI ACTGGG 1 cut(s) 454
BmsI GCATC 1 cut(s) 103
BmuI ACTGGG 1 cut(s) 454
BpiI GAAGAC 1 cut(s) 9
BpuEI CTTGAG 1 cut(s) 104
BsaHI GRCGYC 2 cut(s) 55, 163
BsaI GGTCTC 1 cut(s) 54
BsaXI ACNNNNNCTCC 2 cut(s) 170, 200
Bsc4I CCNNNNNNNGG 2 cut(s) 91, 398
Bse1I ACTGG 2 cut(s) 138, 449
BseBI CCWGG 1 cut(s) 466
BseGI GGATG 1 cut(s) 474
BseLI CCNNNNNNNGG 2 cut(s) 91, 398
BseNI ACTGG 2 cut(s) 138, 449
BseRI GAGGAG 2 cut(s) 178, 202
BseXI GCAGC 1 cut(s) 90
BseYI CCCAGC 1 cut(s) 423
BshFI GGCC 1 cut(s) 8
BshNI GGYRCC 2 cut(s) 54, 171
BslI CCNNNNNNNGG 2 cut(s) 91, 398
BsmAI GTCTC 2 cut(s) 54, 81
BsnI GGCC 1 cut(s) 8
Bso31I GGTCTC 1 cut(s) 54
Bsp143I GATC 2 cut(s) 123, 427
BspACI CCGC 3 cut(s) 76, 82, 175
BspANI GGCC 1 cut(s) 8
BspLI GGNNCC 2 cut(s) 56, 173
BspPI GGATC 2 cut(s) 118, 435
BspQI GCTCTTC 2 cut(s) 256, 311
BspT107I GGYRCC 2 cut(s) 54, 171
BspTNI GGTCTC 1 cut(s) 54
BsrI ACTGG 2 cut(s) 138, 449
BssMI GATC 2 cut(s) 123, 427
BssNI GRCGYC 2 cut(s) 55, 163
Bst2UI CCWGG 1 cut(s) 466
Bst4CI ACNGT 1 cut(s) 260
Bst6I CTCTTC 2 cut(s) 256, 311
BstACI GRCGYC 2 cut(s) 55, 163
BstF5I GGATG 1 cut(s) 474
BstH2I RGCGCY 2 cut(s) 58, 452
BstHHI GCGC 2 cut(s) 57, 451
BstKTI GATC 2 cut(s) 126, 430
BstMAI GTCTC 2 cut(s) 54, 81
BstMBI GATC 2 cut(s) 123, 427
BstMWI GCNNNNNNNGC 1 cut(s) 63
BstNI CCWGG 1 cut(s) 466
BstSCI CCNGG 1 cut(s) 464
BstV1I GCAGC 1 cut(s) 90
BstV2I GAAGAC 1 cut(s) 9
BstX2I RGATCY 2 cut(s) 123, 427
BstYI RGATCY 2 cut(s) 123, 427
BsuRI GGCC 1 cut(s) 8
BtgZI GCGATG 1 cut(s) 47
BtsCI GGATG 1 cut(s) 474
BtsIMutI CAGTG 1 cut(s) 265
CfoI GCGC 2 cut(s) 57, 451
Cfr13I GGNCC 2 cut(s) 135, 331
Csp6I GTAC 1 cut(s) 382
CviAII CATG 1 cut(s) 437
CviJI RGCY 7 cut(s) 8, 81, 147, 249, 265, 407, 423
CviKI_1 RGCY 7 cut(s) 8, 81, 147, 249, 265, 407, 423
CviQI GTAC 1 cut(s) 382
DinI GGCGCC 1 cut(s) 56
DpnI GATC 2 cut(s) 125, 429
DpnII GATC 2 cut(s) 123, 427
DraI TTTAAA 1 cut(s) 414
DriI GACNNNNNGTC 1 cut(s) 40
Eam1104I CTCTTC 2 cut(s) 256, 311
Eam1105I GACNNNNNGTC 1 cut(s) 40
EarI CTCTTC 2 cut(s) 256, 311
Eco31I GGTCTC 1 cut(s) 54
Eco47I GGWCC 2 cut(s) 135, 331
Eco57I CTGAAG 1 cut(s) 237
EcoRII CCWGG 1 cut(s) 464
EgeI GGCGCC 1 cut(s) 56
EheI GGCGCC 1 cut(s) 56
FaeI CATG 1 cut(s) 440
FaiI YATR 4 cut(s) 354, 363, 399, 438
FatI CATG 1 cut(s) 436
Fnu4HI GCNGC 2 cut(s) 79, 82
FokI GGATG 1 cut(s) 481
Fsp4HI GCNGC 2 cut(s) 79, 82
FspBI CTAG 1 cut(s) 276
GlaI GCGC 2 cut(s) 56, 450
GluI GCNGC 2 cut(s) 79, 82
GsaI CCCAGC 1 cut(s) 427
HaeII RGCGCY 2 cut(s) 58, 452
HaeIII GGCC 1 cut(s) 8
HhaI GCGC 2 cut(s) 57, 451
Hin1I GRCGYC 2 cut(s) 55, 163
Hin1II CATG 1 cut(s) 440
Hin6I GCGC 2 cut(s) 55, 449
HinP1I GCGC 2 cut(s) 55, 449
HinfI GANTC 5 cut(s) 35, 203, 224, 233, 343
Hpy166II GTNNAC 1 cut(s) 371
Hpy188I TCNGA 6 cut(s) 34, 128, 202, 223, 229, 256
Hpy188III TCNNGA 2 cut(s) 121, 237
Hpy8I GTNNAC 1 cut(s) 371
Hpy99I CGWCG 6 cut(s) 34, 43, 165, 168, 220, 233
HpyCH4III ACNGT 1 cut(s) 260
HpyCH4IV ACGT 2 cut(s) 163, 358
HpyF10VI GCNNNNNNNGC 1 cut(s) 63
HpySE526I ACGT 2 cut(s) 163, 358
Hsp92I GRCGYC 2 cut(s) 55, 163
Hsp92II CATG 1 cut(s) 440
HspAI GCGC 2 cut(s) 55, 449
KasI GGCGCC 1 cut(s) 54
Kzo9I GATC 2 cut(s) 123, 427
LguI GCTCTTC 2 cut(s) 256, 311
LmnI GCTCC 2 cut(s) 152, 420
Lsp1109I GCAGC 1 cut(s) 90
LweI GCATC 1 cut(s) 103
MaeI CTAG 1 cut(s) 276
MaeII ACGT 2 cut(s) 163, 358
MalI GATC 2 cut(s) 125, 429
MboI GATC 2 cut(s) 123, 427
MboII GAAGA 8 cut(s) 9, 12, 186, 189, 243, 310, 325, 328
MflI RGATCY 2 cut(s) 123, 427
MluCI AATT 1 cut(s) 415
Mly113I GGCGCC 1 cut(s) 55
MlyI GAGTC 2 cut(s) 29, 352
MmeI TCCRAC 2 cut(s) 12, 252
MnlI CCTC 7 cut(s) 19, 22, 126, 128, 199, 223, 282
MseI TTAA 1 cut(s) 413
MspR9I CCNGG 1 cut(s) 466
MvaI CCWGG 1 cut(s) 466
MwoI GCNNNNNNNGC 1 cut(s) 63
NarI GGCGCC 1 cut(s) 55
NdeII GATC 2 cut(s) 123, 427
NlaIII CATG 1 cut(s) 440
NlaIV GGNNCC 2 cut(s) 56, 173
NmeAIII GCCGAG 2 cut(s) 31, 110
PciSI GCTCTTC 2 cut(s) 256, 311
PcsI WCGNNNNNNNCGW 3 cut(s) 35, 38, 355
PfeI GAWTC 3 cut(s) 203, 224, 233
PkrI GCNGC 2 cut(s) 80, 83
PleI GAGTC 2 cut(s) 29, 351
PluTI GGCGCC 1 cut(s) 58
PpsI GAGTC 2 cut(s) 29, 351
Psp6I CCWGG 1 cut(s) 464
PspFI CCCAGC 1 cut(s) 423
PspGI CCWGG 1 cut(s) 464
PspN4I GGNNCC 2 cut(s) 56, 173
PspPI GGNCC 2 cut(s) 135, 331
PsuI RGATCY 2 cut(s) 123, 427
RsaI GTAC 1 cut(s) 383
RsaNI GTAC 1 cut(s) 382
SapI GCTCTTC 2 cut(s) 256, 311
SaqAI TTAA 1 cut(s) 413
SatI GCNGC 2 cut(s) 79, 82
Sau3AI GATC 2 cut(s) 123, 427
Sau96I GGNCC 2 cut(s) 135, 331
ScaI AGTACT 1 cut(s) 383
SchI GAGTC 2 cut(s) 29, 352
ScrFI CCNGG 1 cut(s) 466
SetI ASST 5 cut(s) 149, 166, 251, 361, 425
SfaNI GCATC 1 cut(s) 103
SfoI GGCGCC 1 cut(s) 56
SinI GGWCC 2 cut(s) 135, 331
SmlI CTYRAG 1 cut(s) 119
SmoI CTYRAG 1 cut(s) 119
Sse9I AATT 1 cut(s) 415
SsiI CCGC 3 cut(s) 76, 82, 175
SspDI GGCGCC 1 cut(s) 54
SspMI CTAG 1 cut(s) 276
StyD4I CCNGG 1 cut(s) 464
TaaI ACNGT 1 cut(s) 260
TaiI ACGT 2 cut(s) 166, 361
TasI AATT 1 cut(s) 415
TatI WGTACW 1 cut(s) 381
TauI GCSGC 1 cut(s) 84
TfiI GAWTC 3 cut(s) 203, 224, 233
Tru1I TTAA 1 cut(s) 413
Tru9I TTAA 1 cut(s) 413
TscAI CASTG 1 cut(s) 265
TseI GCWGC 1 cut(s) 78
TspRI CASTG 1 cut(s) 265
VpaK11BI GGWCC 2 cut(s) 135, 331
XspI CTAG 1 cut(s) 276
ZraI GACGTC 1 cut(s) 164
ZrmI AGTACT 1 cut(s) 383
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.