Rh4CG021400

Stem-specific protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4C
OG0012461
Physical Location & Seq
Forward (+)
4255903 .. 4257802
1900 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4CG021400.1

Sequence Viewer

Length: 753 bp
ATGCTGGCCGTGTTCGACAAATCGGTGGCGAAGAGCCCGGAGGCTCTGCAAAGCCCTGAATCGGGATCAGTCTCTGCTCTCAAAGATGGGTTCTTGGCCCAACACTTCGGCTCCGTCCACCCTTCTTCCGTCACCGTCAATCTTGGCTCTTCCGGCCTCTTTGCCTATTCCAACGACAAGCAAAACCCTCTGCTTCCCAGGCTGTTTGCGGTTGTGGATGACATTTTCTGCCTGTTCCAAGGCCATATTGAGAATGTTGCTCTTCTCAAGCAACAATATGGATTGAACAAGACAGCCAATGAGGTGATCATTGTTATTGAAGCGTACCGAACTTTGAGAGATCGTGGTCCTTATCCTGCTGATCAGGTTGTGAGAGATATCCAAGGGAAGTTTGCTTTTATTCTCTATGACACTACTTCAAAGGTCTCGTTTGTAGCTGCTGATGTTGATGGCAATGTTCCTTTTTTCTGGGGAACTGATTCTGAAGGCAATCTTGTTATTGCTGATGATGCAGAAGTTGTGAAGAAGGGCTGTGAGAAGTCATTTGCACCATTTCCTAAAGGATGTTTCTTCACATCCTCTGGAGGCCTGAGGAGTTTTGAGCACCCCCATAATGAGTTGAAGGCAGTGCCAAGGGTGGATAGTTCCGGTCAGGTGTGCGGTGCAACTTTCAAGGTTGATGCTGAGGCTAGGAAGGAGTCTAGTGGAATGCCCAGAGTTGGGAGTGCTGCTAATTGGTCTTCAGATTATTGA
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

250

Amino Acids

27.04

Weight (kDa)

5.55

Isoelectric Point (pI)

36.81

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DUF3700 PF12481 2 - 226 2.2e-113 Aluminium induced protein
GATase_7 PF13537 74 - 168 4.9e-07 Glutamine amidotransferase domain
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: OG0012461)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G22850 AT5G43830
fragaria_vesca FvH4_4g01560
malus_domestica MD13G1201000.v1.1 MD16G1200200.v1.1
prunus_persica Prupe.1G022400_v2.0.a1 Prupe.1G022400_v2.0.a1
pyrus_communis pycom13g17440 pycom16g16940
rosa_chinensis RchiOBHm_Chr4g0388131
rosa_laevigata RLG00000010078
rosa_multiflora Rmu_sc0002509.1_g000004
rosa_roxburghii Rroxscaffold_5G00334680
rosa_rugosa Rorug03G0315000
rosa_samantha Rh4AG020800 Rh4BG015200 Rh4CG021400 Rh4DG016000
rosa_wichuraiana Rw4G001390

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 2 cut(s) 209, 660
AclWI GGATC 1 cut(s) 73
AcoI YGGCCR 1 cut(s) 6
AcuI CTGAAG 2 cut(s) 504, 726
AfaI GTAC 1 cut(s) 326
AfiI CCNNNNNNNGG 4 cut(s) 61, 62, 719, 720
AgsI TTSAA 5 cut(s) 286, 320, 420, 622, 673
AjnI CCWGG 1 cut(s) 197
AluBI AGCT 1 cut(s) 437
AluI AGCT 1 cut(s) 437
Alw21I GWGCWC 1 cut(s) 606
Alw26I GTCTC 2 cut(s) 76, 430
AlwI GGATC 1 cut(s) 73
AlwNI CAGNNNCTG 1 cut(s) 74
AoxI GGCC 5 cut(s) 6, 96, 154, 241, 586
ApeKI GCWGC 2 cut(s) 437, 728
Asp700I GAANNNNTTC 1 cut(s) 478
AspS9I GGNCC 2 cut(s) 97, 347
AsuC2I CCSGG 1 cut(s) 38
AsuHPI GGTGA 2 cut(s) 124, 316
AvaII GGWCC 1 cut(s) 347
AxyI CCTNAGG 1 cut(s) 590
BanII GRGCYC 1 cut(s) 38
BbsI GAAGAC 1 cut(s) 732
Bbv12I GWGCWC 1 cut(s) 606
BbvCI CCTCAGC 1 cut(s) 684
BbvI GCAGC 2 cut(s) 424, 715
BccI CCATC 2 cut(s) 80, 443
BciT130I CCWGG 1 cut(s) 199
BclI TGATCA 2 cut(s) 306, 361
BcnI CCSGG 1 cut(s) 38
BcoDI GTCTC 2 cut(s) 76, 430
BfaI CTAG 2 cut(s) 690, 702
BisI GCNGC 2 cut(s) 438, 729
BlsI GCNGC 2 cut(s) 439, 730
Bme1390I CCNGG 2 cut(s) 38, 199
Bme18I GGWCC 1 cut(s) 347
BmgT120I GGNCC 2 cut(s) 97, 347
BmiI GGNNCC 1 cut(s) 112
BmrFI CCNGG 2 cut(s) 38, 199
BmsI GCATC 2 cut(s) 499, 670
BpiI GAAGAC 1 cut(s) 732
BpmI CTGGAG 1 cut(s) 603
Bpu10I CCTNAGC 1 cut(s) 684
BpuEI CTTGAG 1 cut(s) 251
BpuMI CCSGG 1 cut(s) 38
BsaI GGTCTC 1 cut(s) 430
BsaJI CCNNGG 4 cut(s) 197, 238, 382, 632
BsaWI WCCGGW 1 cut(s) 647
BsaXI ACNNNNNCTCC 2 cut(s) 95, 125
Bsc4I CCNNNNNNNGG 4 cut(s) 61, 62, 719, 720
Bse21I CCTNAGG 1 cut(s) 590
Bse3DI GCAATG 1 cut(s) 460
BseBI CCWGG 1 cut(s) 199
BseDI CCNNGG 4 cut(s) 197, 238, 382, 632
BseGI GGATG 3 cut(s) 223, 569, 575
BseLI CCNNNNNNNGG 4 cut(s) 61, 62, 719, 720
BseMI GCAATG 1 cut(s) 460
BseMII CTCAG 2 cut(s) 581, 675
BseRI GAGGAG 1 cut(s) 607
BseXI GCAGC 2 cut(s) 424, 715
BshFI GGCC 5 cut(s) 8, 98, 156, 243, 588
BsiHKAI GWGCWC 1 cut(s) 606
BsiSI CCGG 3 cut(s) 38, 153, 648
BslI CCNNNNNNNGG 4 cut(s) 61, 62, 719, 720
BsmAI GTCTC 2 cut(s) 76, 430
BsmI GAATGC 1 cut(s) 714
BsnI GGCC 5 cut(s) 8, 98, 156, 243, 588
Bso31I GGTCTC 1 cut(s) 430
Bsp1286I GDGCHC 2 cut(s) 38, 606
Bsp143I GATC 4 cut(s) 65, 306, 340, 361
BspACI CCGC 2 cut(s) 209, 660
BspANI GGCC 5 cut(s) 8, 98, 156, 243, 588
BspCNI CTCAG 2 cut(s) 582, 676
BspLI GGNNCC 1 cut(s) 112
BspPI GGATC 1 cut(s) 73
BspQI GCTCTTC 3 cut(s) 26, 154, 267
BspTNI GGTCTC 1 cut(s) 430
BsrDI GCAATG 1 cut(s) 460
BssECI CCNNGG 4 cut(s) 197, 238, 382, 632
BssMI GATC 4 cut(s) 65, 306, 340, 361
BssT1I CCWWGG 3 cut(s) 238, 382, 632
Bst2UI CCWGG 1 cut(s) 199
Bst4CI ACNGT 1 cut(s) 136
Bst6I CTCTTC 3 cut(s) 26, 154, 267
BstC8I GCNNGC 1 cut(s) 6
BstDEI CTNAG 2 cut(s) 590, 684
BstF5I GGATG 3 cut(s) 223, 569, 575
BstKTI GATC 4 cut(s) 68, 309, 343, 364
BstMAI GTCTC 2 cut(s) 76, 430
BstMBI GATC 4 cut(s) 65, 306, 340, 361
BstMWI GCNNNNNNNGC 3 cut(s) 153, 199, 509
BstNI CCWGG 1 cut(s) 199
BstSCI CCNGG 2 cut(s) 36, 197
BstV1I GCAGC 2 cut(s) 424, 715
BstV2I GAAGAC 1 cut(s) 732
Bsu36I CCTNAGG 1 cut(s) 590
BsuRI GGCC 5 cut(s) 8, 98, 156, 243, 588
BtsCI GGATG 3 cut(s) 223, 569, 575
BtsI GCAGTG 1 cut(s) 633
BtsIMutI CAGTG 1 cut(s) 633
Cac8I GCNNGC 1 cut(s) 6
CaiI CAGNNNCTG 1 cut(s) 74
Cfr13I GGNCC 2 cut(s) 97, 347
Csp6I GTAC 1 cut(s) 325
CviQI GTAC 1 cut(s) 325
DdeI CTNAG 2 cut(s) 590, 684
DpnI GATC 4 cut(s) 67, 308, 342, 363
DpnII GATC 4 cut(s) 65, 306, 340, 361
EaeI YGGCCR 1 cut(s) 6
Eam1104I CTCTTC 3 cut(s) 26, 154, 267
EarI CTCTTC 3 cut(s) 26, 154, 267
Eco130I CCWWGG 3 cut(s) 238, 382, 632
Eco147I AGGCCT 1 cut(s) 588
Eco24I GRGCYC 1 cut(s) 38
Eco31I GGTCTC 1 cut(s) 430
Eco32I GATATC 1 cut(s) 379
Eco47I GGWCC 1 cut(s) 347
Eco57I CTGAAG 2 cut(s) 504, 726
Eco81I CCTNAGG 1 cut(s) 590
EcoRII CCWGG 1 cut(s) 197
EcoRV GATATC 1 cut(s) 379
EcoT14I CCWWGG 3 cut(s) 238, 382, 632
EcoT38I GRGCYC 1 cut(s) 38
ErhI CCWWGG 3 cut(s) 238, 382, 632
FaiI YATR 4 cut(s) 246, 279, 408, 612
FalI AAGNNNNNCTT 2 cut(s) 477, 509
FbaI TGATCA 2 cut(s) 306, 361
Fnu4HI GCNGC 2 cut(s) 438, 729
FokI GGATG 3 cut(s) 230, 562, 576
FriOI GRGCYC 1 cut(s) 38
Fsp4HI GCNGC 2 cut(s) 438, 729
FspBI CTAG 2 cut(s) 690, 702
GluI GCNGC 2 cut(s) 438, 729
GsuI CTGGAG 1 cut(s) 603
HaeIII GGCC 5 cut(s) 8, 98, 156, 243, 588
HapII CCGG 3 cut(s) 38, 153, 648
HinfI GANTC 3 cut(s) 59, 479, 698
HpaII CCGG 3 cut(s) 38, 153, 648
HphI GGTGA 2 cut(s) 124, 316
Hpy166II GTNNAC 1 cut(s) 118
Hpy188I TCNGA 2 cut(s) 484, 745
Hpy188III TCNNGA 2 cut(s) 63, 582
Hpy8I GTNNAC 1 cut(s) 118
HpyAV CCTTC 5 cut(s) 132, 479, 520, 616, 688
HpyCH4III ACNGT 1 cut(s) 136
HpyCH4V TGCA 4 cut(s) 49, 512, 548, 665
HpyF10VI GCNNNNNNNGC 3 cut(s) 153, 199, 509
HpyF3I CTNAG 2 cut(s) 590, 684
Ksp22I TGATCA 2 cut(s) 306, 361
Kzo9I GATC 4 cut(s) 65, 306, 340, 361
LguI GCTCTTC 3 cut(s) 26, 154, 267
LmnI GCTCC 1 cut(s) 116
Lsp1109I GCAGC 2 cut(s) 424, 715
LweI GCATC 2 cut(s) 499, 670
MaeI CTAG 2 cut(s) 690, 702
MaeIII GTNAC 1 cut(s) 130
MalI GATC 4 cut(s) 67, 308, 342, 363
MboI GATC 4 cut(s) 65, 306, 340, 361
MboII GAAGA 7 cut(s) 43, 117, 141, 254, 535, 562, 732
MhlI GDGCHC 2 cut(s) 38, 606
MluCI AATT 1 cut(s) 733
MlyI GAGTC 1 cut(s) 707
MmeI TCCRAC 1 cut(s) 195
MnlI CCTC 8 cut(s) 34, 167, 198, 295, 578, 585, 589, 679
MroXI GAANNNNTTC 1 cut(s) 478
MspI CCGG 3 cut(s) 38, 153, 648
MspR9I CCNGG 2 cut(s) 38, 199
Mva1269I GAATGC 1 cut(s) 714
MvaI CCWGG 1 cut(s) 199
MwoI GCNNNNNNNGC 3 cut(s) 153, 199, 509
NciI CCSGG 1 cut(s) 38
NdeII GATC 4 cut(s) 65, 306, 340, 361
NlaIV GGNNCC 1 cut(s) 112
NmuCI GTSAC 1 cut(s) 130
PceI AGGCCT 1 cut(s) 588
PciSI GCTCTTC 3 cut(s) 26, 154, 267
PctI GAATGC 1 cut(s) 714
PdmI GAANNNNTTC 1 cut(s) 478
PfeI GAWTC 2 cut(s) 59, 479
PkrI GCNGC 2 cut(s) 439, 730
PleI GAGTC 1 cut(s) 706
PpsI GAGTC 1 cut(s) 706
Psp6I CCWGG 1 cut(s) 197
PspGI CCWGG 1 cut(s) 197
PspN4I GGNNCC 1 cut(s) 112
PspPI GGNCC 2 cut(s) 97, 347
PstNI CAGNNNCTG 1 cut(s) 74
RsaI GTAC 1 cut(s) 326
RsaNI GTAC 1 cut(s) 325
SapI GCTCTTC 3 cut(s) 26, 154, 267
SatI GCNGC 2 cut(s) 438, 729
Sau3AI GATC 4 cut(s) 65, 306, 340, 361
Sau96I GGNCC 2 cut(s) 97, 347
SchI GAGTC 1 cut(s) 707
ScrFI CCNGG 2 cut(s) 38, 199
SduI GDGCHC 2 cut(s) 38, 606
SetI ASST 6 cut(s) 306, 369, 426, 439, 657, 678
SfaNI GCATC 2 cut(s) 499, 670
SinI GGWCC 1 cut(s) 347
SmlI CTYRAG 1 cut(s) 266
SmoI CTYRAG 1 cut(s) 266
Sse9I AATT 1 cut(s) 733
SseBI AGGCCT 1 cut(s) 588
SsiI CCGC 2 cut(s) 209, 660
SspMI CTAG 2 cut(s) 690, 702
StuI AGGCCT 1 cut(s) 588
StyD4I CCNGG 2 cut(s) 36, 197
StyI CCWWGG 3 cut(s) 238, 382, 632
TaaI ACNGT 1 cut(s) 136
TaqI TCGA 1 cut(s) 15
TasI AATT 1 cut(s) 733
TfiI GAWTC 2 cut(s) 59, 479
TscAI CASTG 1 cut(s) 633
TseFI GTSAC 1 cut(s) 130
TseI GCWGC 2 cut(s) 437, 728
Tsp45I GTSAC 1 cut(s) 130
TspGWI ACGGA 2 cut(s) 103, 118
TspRI CASTG 1 cut(s) 633
VpaK11BI GGWCC 1 cut(s) 347
XmnI GAANNNNTTC 1 cut(s) 478
XspI CTAG 2 cut(s) 690, 702
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.