Rh5BG239400

Stem-specific protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5B
OG0014459
Physical Location & Seq
Forward (+)
28720903 .. 28722537
1635 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5BG239400.1

Sequence Viewer

Length: 768 bp
ATGTTGGCTATTTTTCACAAGGCTTTTGCTAACCCACCGGAGGAGCTCAACAGCCCTGCTTCTCACCATGGTTCCAAGAAGCCTAAGCTCCCAGAAGAAACCCTCCAAGAGTTTCTCTCCCAGCATCCCCACAACAACTTCTCAATGAGTTTTGGAGATGCTGCAGTTCTTGCTTATGACAAACCAGACCAACCCTTTTCCCTAAAACAGAGGTTGTTCTGTGGTTTTGATGATATATACTGTCTGTTTCTGGGTAACTTGAACAATCTGTGTACGCTGAATAAGCAGTATGGTCTGATAAAGAATACCAATGAGGCCATGTTTGTGATCGAAGCTTATCGGACCCTCCGAGACCGGGGTCCGTACCCGGCTGACCAGGTTGTTAAGGATCTTGATGGGAGCTTTGCTTTTGTTGTCTATGACAGCAAGGTCGGAAGTGTCTTCACTGCACTGGGTTCTGATGGGGGAGTACAATTGTATTGGGGTATTGCAGCTGATGGTTCTGTAGTAATTTCTGATGAATTACATGTCATAAAAGAAGGATGTGCTAAATCATTTGCTCCATTCCCAAAAGGTTGCTTCTTTCATAGTGAGGGAGGATTGATGAGCTTTGAGCATCCAATGAATAAGATGAAGGCAATGCCCAGAATTGATAGTGAAGGTGCCATGTGTGGAGCTAACTTCAACGTGGACAAATTCACGAGGGTCAACAGTATTCCACGTGTCGGGAGTGCAACAAACTGGAGTACTGAGTGGGCATCGCACTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
DUF3700

Protein Analysis

255

Amino Acids

28.22

Weight (kDa)

5.97

Isoelectric Point (pI)

32.73

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DUF3700 PF12481 2 - 230 2.5e-108 Aluminium induced 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: OG0014459)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G27450
fragaria_vesca FvH4_3g20560
malus_domestica MD03G1224100.v1.1 MD11G1241900.v1.1
prunus_persica Prupe.4G185400_v2.0.a1
pyrus_communis pycom03g17250 pycom11g21360
rosa_chinensis RchiOBHm_Chr5g0034571
rosa_laevigata RLG00000033555
rosa_multiflora Rmu_sc0003126.1_g000004
rosa_roxburghii Rroxscaffold_1G00045760
rosa_rugosa Rorug05G0146500
rosa_samantha Rh5AG238900 Rh5BG239400 Rh5CG269900
rosa_wichuraiana Rw5G021780 Rw5G021870

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 428
AccB1I GGYRCC 1 cut(s) 662
AclWI GGATC 1 cut(s) 396
AcsI RAATTY 1 cut(s) 695
AcvI CACGTG 1 cut(s) 722
AfaI GTAC 4 cut(s) 274, 365, 471, 748
AfiI CCNNNNNNNGG 3 cut(s) 40, 355, 725
AflIII ACRYGT 2 cut(s) 526, 721
AgsI TTSAA 2 cut(s) 262, 685
AjnI CCWGG 1 cut(s) 375
AluBI AGCT 7 cut(s) 46, 88, 335, 402, 494, 609, 677
AluI AGCT 7 cut(s) 46, 88, 335, 402, 494, 609, 677
Alw21I GWGCWC 1 cut(s) 48
Alw26I GTCTC 1 cut(s) 345
AlwI GGATC 1 cut(s) 396
AoxI GGCC 1 cut(s) 315
ApeKI GCWGC 2 cut(s) 161, 491
ApoI RAATTY 1 cut(s) 695
AspS9I GGNCC 2 cut(s) 342, 359
AsuC2I CCSGG 2 cut(s) 356, 368
AsuHPI GGTGA 1 cut(s) 56
AvaII GGWCC 2 cut(s) 342, 359
BanI GGYRCC 1 cut(s) 662
BanII GRGCYC 1 cut(s) 48
BauI CACGAG 1 cut(s) 700
BbrPI CACGTG 1 cut(s) 722
BbsI GAAGAC 1 cut(s) 433
Bbv12I GWGCWC 1 cut(s) 48
BbvI GCAGC 2 cut(s) 148, 503
BccI CCATC 3 cut(s) 389, 455, 491
BciT130I CCWGG 1 cut(s) 377
BcnI CCSGG 2 cut(s) 356, 368
BcoDI GTCTC 1 cut(s) 345
BfmI CTRYAG 2 cut(s) 162, 504
BisI GCNGC 2 cut(s) 162, 492
BlsI GCNGC 2 cut(s) 163, 493
BmcAI AGTACT 1 cut(s) 748
Bme1390I CCNGG 3 cut(s) 356, 368, 377
Bme18I GGWCC 2 cut(s) 342, 359
BmgT120I GGNCC 2 cut(s) 342, 359
BmiI GGNNCC 4 cut(s) 73, 344, 360, 664
BmrFI CCNGG 3 cut(s) 356, 368, 377
BmrI ACTGGG 1 cut(s) 461
BmsI GCATC 3 cut(s) 133, 148, 625
BmuI ACTGGG 1 cut(s) 461
BoxI GACNNNNGTC 1 cut(s) 357
BpiI GAAGAC 1 cut(s) 433
BplI GAGNNNNNCTC 2 cut(s) 101, 133
BpmI CTGGAG 1 cut(s) 763
Bpu10I CCTNAGC 1 cut(s) 84
BpuMI CCSGG 2 cut(s) 356, 368
BsaAI YACGTR 1 cut(s) 722
BsaI GGTCTC 1 cut(s) 345
BsaJI CCNNGG 2 cut(s) 67, 355
BsaWI WCCGGW 1 cut(s) 37
Bsc4I CCNNNNNNNGG 3 cut(s) 40, 355, 725
Bse1I ACTGG 2 cut(s) 456, 746
Bse3DI GCAATG 1 cut(s) 645
BseBI CCWGG 1 cut(s) 377
BseDI CCNNGG 2 cut(s) 67, 355
BseGI GGATG 3 cut(s) 124, 548, 616
BseLI CCNNNNNNNGG 3 cut(s) 40, 355, 725
BseMI GCAATG 1 cut(s) 645
BseMII CTCAG 1 cut(s) 741
BseNI ACTGG 2 cut(s) 456, 746
BseRI GAGGAG 1 cut(s) 56
BseXI GCAGC 2 cut(s) 148, 503
BseYI CCCAGC 1 cut(s) 120
BsgI GTGCAG 1 cut(s) 432
BshFI GGCC 1 cut(s) 317
BshNI GGYRCC 1 cut(s) 662
BsiHKAI GWGCWC 1 cut(s) 48
BsiSI CCGG 3 cut(s) 38, 355, 368
BslI CCNNNNNNNGG 3 cut(s) 40, 355, 725
BsmAI GTCTC 1 cut(s) 345
BsnI GGCC 1 cut(s) 317
Bso31I GGTCTC 1 cut(s) 345
Bsp1286I GDGCHC 1 cut(s) 48
Bsp143I GATC 2 cut(s) 327, 388
Bsp19I CCATGG 1 cut(s) 67
BspANI GGCC 1 cut(s) 317
BspCNI CTCAG 1 cut(s) 742
BspLI GGNNCC 4 cut(s) 73, 344, 360, 664
BspMAI CTGCAG 1 cut(s) 166
BspPI GGATC 1 cut(s) 396
BspT107I GGYRCC 1 cut(s) 662
BspTNI GGTCTC 1 cut(s) 345
BsrDI GCAATG 1 cut(s) 645
BsrI ACTGG 2 cut(s) 456, 746
BssECI CCNNGG 2 cut(s) 67, 355
BssMI GATC 2 cut(s) 327, 388
BssSI CACGAG 1 cut(s) 700
BssT1I CCWWGG 1 cut(s) 67
Bst2BI CACGAG 1 cut(s) 700
Bst2UI CCWGG 1 cut(s) 377
Bst4CI ACNGT 2 cut(s) 242, 713
BstAPI GCANNNNNTGC 1 cut(s) 170
BstBAI YACGTR 1 cut(s) 722
BstDEI CTNAG 2 cut(s) 84, 750
BstDSI CCRYGG 1 cut(s) 67
BstF5I GGATG 3 cut(s) 124, 548, 616
BstKTI GATC 2 cut(s) 330, 391
BstMAI GTCTC 1 cut(s) 345
BstMBI GATC 2 cut(s) 327, 388
BstMWI GCNNNNNNNGC 2 cut(s) 170, 283
BstNI CCWGG 1 cut(s) 377
BstNSI RCATGY 1 cut(s) 530
BstPAI GACNNNNGTC 1 cut(s) 357
BstSCI CCNGG 3 cut(s) 354, 366, 375
BstSFI CTRYAG 2 cut(s) 162, 504
BstV1I GCAGC 2 cut(s) 148, 503
BstV2I GAAGAC 1 cut(s) 433
BstX2I RGATCY 1 cut(s) 388
BstYI RGATCY 1 cut(s) 388
BsuRI GGCC 1 cut(s) 317
BtgI CCRYGG 1 cut(s) 67
BtgZI GCGATG 1 cut(s) 744
BtsCI GGATG 3 cut(s) 124, 548, 616
BtsI GCAGTG 1 cut(s) 444
BtsIMutI CAGTG 2 cut(s) 444, 449
Cfr13I GGNCC 2 cut(s) 342, 359
CsiI ACCWGGT 1 cut(s) 375
Csp6I GTAC 4 cut(s) 273, 364, 470, 747
CviAII CATG 4 cut(s) 68, 319, 527, 667
CviQI GTAC 4 cut(s) 273, 364, 470, 747
DdeI CTNAG 2 cut(s) 84, 750
DpnI GATC 2 cut(s) 329, 390
DpnII GATC 2 cut(s) 327, 388
DrdI GACNNNNNNGTC 1 cut(s) 428
DseDI GACNNNNNNGTC 1 cut(s) 428
Ecl136II GAGCTC 1 cut(s) 46
Eco130I CCWWGG 1 cut(s) 67
Eco24I GRGCYC 1 cut(s) 48
Eco31I GGTCTC 1 cut(s) 345
Eco47I GGWCC 2 cut(s) 342, 359
Eco53kI GAGCTC 1 cut(s) 46
Eco72I CACGTG 1 cut(s) 722
EcoICRI GAGCTC 1 cut(s) 46
EcoRII CCWGG 1 cut(s) 375
EcoT14I CCWWGG 1 cut(s) 67
EcoT38I GRGCYC 1 cut(s) 48
ErhI CCWWGG 1 cut(s) 67
FaeI CATG 4 cut(s) 71, 322, 530, 670
FatI CATG 4 cut(s) 67, 318, 526, 666
Fnu4HI GCNGC 2 cut(s) 162, 492
FokI GGATG 3 cut(s) 111, 555, 603
FriOI GRGCYC 1 cut(s) 48
Fsp4HI GCNGC 2 cut(s) 162, 492
GluI GCNGC 2 cut(s) 162, 492
GsaI CCCAGC 1 cut(s) 124
GsuI CTGGAG 1 cut(s) 763
HaeIII GGCC 1 cut(s) 317
HapII CCGG 3 cut(s) 38, 355, 368
Hin1II CATG 4 cut(s) 71, 322, 530, 670
HincII GTYRAC 1 cut(s) 709
HindII GTYRAC 1 cut(s) 709
HindIII AAGCTT 1 cut(s) 333
HpaII CCGG 3 cut(s) 38, 355, 368
HphI GGTGA 1 cut(s) 56
Hpy166II GTNNAC 3 cut(s) 273, 691, 709
Hpy188I TCNGA 6 cut(s) 297, 342, 350, 434, 460, 517
Hpy188III TCNNGA 3 cut(s) 392, 700, 727
Hpy8I GTNNAC 3 cut(s) 273, 691, 709
HpyAV CCTTC 3 cut(s) 533, 628, 653
HpyCH4III ACNGT 2 cut(s) 242, 713
HpyCH4IV ACGT 2 cut(s) 687, 721
HpyCH4V TGCA 4 cut(s) 164, 449, 491, 734
HpyF10VI GCNNNNNNNGC 2 cut(s) 170, 283
HpyF3I CTNAG 2 cut(s) 84, 750
HpySE526I ACGT 2 cut(s) 687, 721
Hsp92II CATG 4 cut(s) 71, 322, 530, 670
Kzo9I GATC 2 cut(s) 327, 388
LmnI GCTCC 5 cut(s) 43, 93, 399, 565, 674
Lsp1109I GCAGC 2 cut(s) 148, 503
LweI GCATC 3 cut(s) 133, 148, 625
MabI ACCWGGT 1 cut(s) 375
MaeII ACGT 2 cut(s) 687, 721
MaeIII GTNAC 1 cut(s) 254
MalI GATC 2 cut(s) 329, 390
MboI GATC 2 cut(s) 327, 388
MboII GAAGA 2 cut(s) 107, 433
MfeI CAATTG 1 cut(s) 473
MflI RGATCY 1 cut(s) 388
MhlI GDGCHC 1 cut(s) 48
MluCI AATT 5 cut(s) 473, 510, 521, 648, 695
MmeI TCCRAC 1 cut(s) 412
MnlI CCTC 8 cut(s) 34, 113, 204, 307, 356, 586, 590, 696
MseI TTAA 1 cut(s) 384
MslI CAYNNNNRTG 1 cut(s) 323
MspA1I CMGCKG 1 cut(s) 494
MspI CCGG 3 cut(s) 38, 355, 368
MspR9I CCNGG 3 cut(s) 356, 368, 377
MunI CAATTG 1 cut(s) 473
MvaI CCWGG 1 cut(s) 377
MwoI GCNNNNNNNGC 2 cut(s) 170, 283
NciI CCSGG 2 cut(s) 356, 368
NcoI CCATGG 1 cut(s) 67
NdeII GATC 2 cut(s) 327, 388
NlaIII CATG 4 cut(s) 71, 322, 530, 670
NlaIV GGNNCC 4 cut(s) 73, 344, 360, 664
NspI RCATGY 1 cut(s) 530
PciI ACATGT 1 cut(s) 526
PcsI WCGNNNNNNNCGW 1 cut(s) 346
PkrI GCNGC 2 cut(s) 163, 493
PmaCI CACGTG 1 cut(s) 722
PmlI CACGTG 1 cut(s) 722
Ppu21I YACGTR 1 cut(s) 722
PscI ACATGT 1 cut(s) 526
PshAI GACNNNNGTC 1 cut(s) 357
Psp124BI GAGCTC 1 cut(s) 48
Psp6I CCWGG 1 cut(s) 375
PspCI CACGTG 1 cut(s) 722
PspFI CCCAGC 1 cut(s) 120
PspGI CCWGG 1 cut(s) 375
PspN4I GGNNCC 4 cut(s) 73, 344, 360, 664
PspPI GGNCC 2 cut(s) 342, 359
PstI CTGCAG 1 cut(s) 166
PsuI RGATCY 1 cut(s) 388
PvuII CAGCTG 1 cut(s) 494
RsaI GTAC 4 cut(s) 274, 365, 471, 748
RsaNI GTAC 4 cut(s) 273, 364, 470, 747
RseI CAYNNNNRTG 1 cut(s) 323
SacI GAGCTC 1 cut(s) 48
SaqAI TTAA 1 cut(s) 384
SatI GCNGC 2 cut(s) 162, 492
Sau3AI GATC 2 cut(s) 327, 388
Sau96I GGNCC 2 cut(s) 342, 359
ScaI AGTACT 1 cut(s) 748
ScrFI CCNGG 3 cut(s) 356, 368, 377
SduI GDGCHC 1 cut(s) 48
SexAI ACCWGGT 1 cut(s) 375
SfaNI GCATC 3 cut(s) 133, 148, 625
SfcI CTRYAG 2 cut(s) 162, 504
SinI GGWCC 2 cut(s) 342, 359
SmiMI CAYNNNNRTG 1 cut(s) 323
Sse9I AATT 5 cut(s) 473, 510, 521, 648, 695
SstI GAGCTC 1 cut(s) 48
StyD4I CCNGG 3 cut(s) 354, 366, 375
StyI CCWWGG 1 cut(s) 67
TaaI ACNGT 2 cut(s) 242, 713
TaiI ACGT 2 cut(s) 690, 724
TaqI TCGA 1 cut(s) 330
TasI AATT 5 cut(s) 473, 510, 521, 648, 695
TatI WGTACW 2 cut(s) 469, 746
Tru1I TTAA 1 cut(s) 384
Tru9I TTAA 1 cut(s) 384
TscAI CASTG 2 cut(s) 451, 456
TseI GCWGC 2 cut(s) 161, 491
TspDTI ATGAA 4 cut(s) 534, 575, 638, 647
TspGWI ACGGA 1 cut(s) 351
TspRI CASTG 2 cut(s) 451, 456
VpaK11BI GGWCC 2 cut(s) 342, 359
XapI RAATTY 1 cut(s) 695
XceI RCATGY 1 cut(s) 530
ZrmI AGTACT 1 cut(s) 748
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.