Rh5BG081600

Seed dormancy control

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5B
OG0015490
Physical Location & Seq
Reverse (-)
6991199 .. 6991909
711 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5BG081600.1

Sequence Viewer

Length: 711 bp
ATGAAAACCCAAGTTGAGGAGAGGTTCTCCGAGTTTTTTGAGAAGTGGGTTTGTCAGCTTGAGCAAGTCCAACACCAGCTGCTCAAGTTGTCCCAGGAGAAGATACTGCTTCATAATGAGGCAGAGCTCCAAGCTTTGGTGTCCAAGGTCACAAATTTGCACAAAGAATACTACACTGCAAAATGGGCTGCTGCTCATCAAGATGTGCTTGCCTTCTTCTGCCCTGTCTGGTCCAGCCCTTTGGAGAATGCCTTTTCATGGCTGACAGGTTGGAAGCCCTCAATGTTGTTCCAGCTACTGCGAAAAGCTCGGCTGCGGAACGTGTCCGAGCAGCAGCTGAGGAAGATAGAGGAGCTGAGGCTGAAGATTCGGTACGAGGAGGAGAGGGTGGAGAGGGAGATGGAGAGGCAGCAGGTGGCCATGGCAGACCGGAAGACGGTGGAGCTGGCCCGGCTGGCCACCCGGGTCAGGAACGGCGGTGGGACGGTGGCCGAGGTGGAAGGGCTGGTGGATATTGCAATGAAGGTGATGCTGAGTGGGTTGGAGAGAGTCATGAAGGCTGCAGATTGTGTGAGGCTGAAGGCATTGAAGGGTGTGTTGGATTTGCTGAGTCCATTGCAGTGTGTGGAGTTTTTGGCTGCTACTGGCATGGTTCAGATTAAGCTGAGGCAATGGGGAAGGAAAAGGAGCAACCTAATAGACCTAAACTAA
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
DOG1

Protein Analysis

236

Amino Acids

27.42

Weight (kDa)

9.28

Isoelectric Point (pI)

35.67

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DOG1 PF14144 29 - 101 1.3e-24 Seed dormancy control
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: OG0015490)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G18650
fragaria_vesca FvH4_3g07650
malus_domestica MD05G1073300.v1.1 MD05G1299100.v1.1 MD10G1044600.v1.1 MD14G1136000.v1.1
prunus_persica Prupe.4G062700_v2.0.a1
rosa_chinensis RchiOBHm_Chr5g0011031
rosa_laevigata RLG00000031804
rosa_multiflora Rmu_sc0003242.1_g000003
rosa_roxburghii Rroxscaffold_1G00065370
rosa_rugosa Rorug04G0454700
rosa_samantha Rh5BG081600 Rh5DG081400
rosa_wichuraiana Rw0G000130 Rw0G017820

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 403
Acc36I ACCTGC 1 cut(s) 403
AccB7I CCANNNNNTGG 1 cut(s) 136
AciI CCGC 2 cut(s) 316, 477
AcoI YGGCCR 3 cut(s) 417, 456, 489
AcsI RAATTY 1 cut(s) 154
AcuI CTGAAG 2 cut(s) 383, 599
AfaI GTAC 1 cut(s) 374
AfiI CCNNNNNNNGG 5 cut(s) 16, 136, 258, 436, 468
AflIII ACRYGT 1 cut(s) 321
AgsI TTSAA 1 cut(s) 589
AjnI CCWGG 1 cut(s) 93
AjuI GAANNNNNNNTTGG 2 cut(s) 581, 613
Alw21I GWGCWC 1 cut(s) 129
AlwNI CAGNNNCTG 2 cut(s) 298, 337
Ama87I CYCGRG 1 cut(s) 462
AoxI GGCC 4 cut(s) 417, 447, 456, 489
ApeKI GCWGC 9 cut(s) 79, 188, 191, 313, 331, 334, 409, 560, 638
ApoI RAATTY 1 cut(s) 154
AspS9I GGNCC 2 cut(s) 231, 448
AsuC2I CCSGG 3 cut(s) 451, 463, 464
AsuHPI GGTGA 1 cut(s) 538
AvaI CYCGRG 1 cut(s) 462
AvaII GGWCC 1 cut(s) 231
BalI TGGCCA 2 cut(s) 419, 458
BanII GRGCYC 1 cut(s) 129
BarI GAAGNNNNNNTAC 2 cut(s) 356, 388
BbsI GAAGAC 1 cut(s) 440
Bbv12I GWGCWC 1 cut(s) 129
BbvCI CCTCAGC 3 cut(s) 338, 356, 665
BbvI GCAGC 9 cut(s) 66, 175, 178, 300, 343, 346, 421, 547, 625
BccI CCATC 1 cut(s) 394
BceAI ACGGC 1 cut(s) 490
BciT130I CCWGG 1 cut(s) 95
BcnI CCSGG 3 cut(s) 451, 463, 464
BfmI CTRYAG 1 cut(s) 561
BfuAI ACCTGC 1 cut(s) 403
BglI GCCNNNNNGGC 1 cut(s) 455
BisI GCNGC 9 cut(s) 80, 189, 192, 314, 332, 335, 410, 561, 639
BlsI GCNGC 9 cut(s) 81, 190, 193, 315, 333, 336, 411, 562, 640
Bme1390I CCNGG 4 cut(s) 95, 451, 463, 464
Bme18I GGWCC 1 cut(s) 231
BmeT110I CYCGRG 1 cut(s) 462
BmgT120I GGNCC 2 cut(s) 231, 448
BmrFI CCNGG 4 cut(s) 95, 451, 463, 464
BmsI GCATC 1 cut(s) 519
BpiI GAAGAC 1 cut(s) 440
BplI GAGNNNNNCTC 2 cut(s) 11, 43
Bpu10I CCTNAGC 3 cut(s) 338, 356, 665
BpuEI CTTGAG 2 cut(s) 68, 80
BpuMI CCSGG 3 cut(s) 451, 463, 464
BsaJI CCNNGG 5 cut(s) 93, 144, 420, 462, 492
BsaWI WCCGGW 1 cut(s) 429
Bsc4I CCNNNNNNNGG 5 cut(s) 16, 136, 258, 436, 468
Bse1I ACTGG 1 cut(s) 649
Bse3DI GCAATG 3 cut(s) 525, 614, 677
BseBI CCWGG 1 cut(s) 95
BseDI CCNNGG 5 cut(s) 93, 144, 420, 462, 492
BseLI CCNNNNNNNGG 5 cut(s) 16, 136, 258, 436, 468
BseMI GCAATG 3 cut(s) 525, 614, 677
BseMII CTCAG 5 cut(s) 329, 347, 524, 599, 656
BseNI ACTGG 1 cut(s) 649
BseRI GAGGAG 4 cut(s) 32, 365, 392, 395
BseXI GCAGC 9 cut(s) 66, 175, 178, 300, 343, 346, 421, 547, 625
BshFI GGCC 4 cut(s) 419, 449, 458, 491
BsiHKAI GWGCWC 1 cut(s) 129
BsiHKCI CYCGRG 1 cut(s) 462
BsiSI CCGG 3 cut(s) 430, 451, 463
BslFI GGGAC 2 cut(s) 76, 496
BslI CCNNNNNNNGG 5 cut(s) 16, 136, 258, 436, 468
BsmFI GGGAC 2 cut(s) 76, 496
BsmI GAATGC 1 cut(s) 253
BsnI GGCC 4 cut(s) 419, 449, 458, 491
BsoBI CYCGRG 1 cut(s) 462
Bsp1286I GDGCHC 1 cut(s) 129
Bsp19I CCATGG 1 cut(s) 420
BspACI CCGC 2 cut(s) 316, 477
BspANI GGCC 4 cut(s) 419, 449, 458, 491
BspCNI CTCAG 5 cut(s) 330, 348, 525, 600, 657
BspHI TCATGA 1 cut(s) 552
BspMAI CTGCAG 1 cut(s) 565
BspMI ACCTGC 1 cut(s) 403
BsrDI GCAATG 3 cut(s) 525, 614, 677
BsrI ACTGG 1 cut(s) 649
BssECI CCNNGG 5 cut(s) 93, 144, 420, 462, 492
BssT1I CCWWGG 2 cut(s) 144, 420
Bst2UI CCWGG 1 cut(s) 95
Bst4CI ACNGT 2 cut(s) 439, 487
BstC8I GCNNGC 3 cut(s) 210, 447, 456
BstDEI CTNAG 5 cut(s) 338, 356, 533, 608, 665
BstDSI CCRYGG 1 cut(s) 420
BstMWI GCNNNNNNNGC 3 cut(s) 185, 451, 455
BstNI CCWGG 1 cut(s) 95
BstSCI CCNGG 4 cut(s) 93, 449, 461, 462
BstSFI CTRYAG 1 cut(s) 561
BstV1I GCAGC 9 cut(s) 66, 175, 178, 300, 343, 346, 421, 547, 625
BstV2I GAAGAC 1 cut(s) 440
BstXI CCANNNNNNTGG 1 cut(s) 241
BsuRI GGCC 4 cut(s) 419, 449, 458, 491
BtgI CCRYGG 1 cut(s) 420
BtsI GCAGTG 2 cut(s) 174, 626
BtsIMutI CAGTG 2 cut(s) 174, 626
BveI ACCTGC 1 cut(s) 403
Cac8I GCNNGC 3 cut(s) 210, 447, 456
CaiI CAGNNNCTG 2 cut(s) 298, 337
CciI TCATGA 1 cut(s) 552
Cfr13I GGNCC 2 cut(s) 231, 448
Cfr9I CCCGGG 1 cut(s) 462
Csp6I GTAC 1 cut(s) 373
CviAII CATG 4 cut(s) 258, 421, 553, 649
CviQI GTAC 1 cut(s) 373
DdeI CTNAG 5 cut(s) 338, 356, 533, 608, 665
EaeI YGGCCR 3 cut(s) 417, 456, 489
Ecl136II GAGCTC 1 cut(s) 127
Eco130I CCWWGG 2 cut(s) 144, 420
Eco24I GRGCYC 1 cut(s) 129
Eco47I GGWCC 1 cut(s) 231
Eco53kI GAGCTC 1 cut(s) 127
Eco57I CTGAAG 2 cut(s) 383, 599
Eco88I CYCGRG 1 cut(s) 462
EcoICRI GAGCTC 1 cut(s) 127
EcoRII CCWGG 1 cut(s) 93
EcoT14I CCWWGG 2 cut(s) 144, 420
EcoT38I GRGCYC 1 cut(s) 129
ErhI CCWWGG 2 cut(s) 144, 420
FaeI CATG 4 cut(s) 261, 424, 556, 652
FaiI YATR 5 cut(s) 114, 259, 422, 554, 650
FalI AAGNNNNNCTT 2 cut(s) 192, 224
FaqI GGGAC 2 cut(s) 76, 496
FatI CATG 4 cut(s) 257, 420, 552, 648
Fnu4HI GCNGC 9 cut(s) 80, 189, 192, 314, 332, 335, 410, 561, 639
FriOI GRGCYC 1 cut(s) 129
Fsp4HI GCNGC 9 cut(s) 80, 189, 192, 314, 332, 335, 410, 561, 639
GluI GCNGC 9 cut(s) 80, 189, 192, 314, 332, 335, 410, 561, 639
HaeIII GGCC 4 cut(s) 419, 449, 458, 491
HapII CCGG 3 cut(s) 430, 451, 463
Hin1II CATG 4 cut(s) 261, 424, 556, 652
HindIII AAGCTT 1 cut(s) 132
HinfI GANTC 3 cut(s) 367, 549, 610
HpaII CCGG 3 cut(s) 430, 451, 463
HphI GGTGA 1 cut(s) 538
Hpy188I TCNGA 3 cut(s) 31, 328, 657
Hpy188III TCNNGA 3 cut(s) 200, 469, 553
HpyAV CCTTC 7 cut(s) 223, 494, 517, 550, 574, 583, 672
HpyCH4III ACNGT 2 cut(s) 439, 487
HpyCH4IV ACGT 1 cut(s) 321
HpyCH4V TGCA 5 cut(s) 160, 179, 518, 563, 619
HpyF10VI GCNNNNNNNGC 3 cut(s) 185, 451, 455
HpyF3I CTNAG 5 cut(s) 338, 356, 533, 608, 665
HpySE526I ACGT 1 cut(s) 321
Hsp92II CATG 4 cut(s) 261, 424, 556, 652
LmnI GCTCC 4 cut(s) 132, 352, 442, 687
Lsp1109I GCAGC 9 cut(s) 66, 175, 178, 300, 343, 346, 421, 547, 625
LweI GCATC 1 cut(s) 519
MaeII ACGT 1 cut(s) 321
MaeIII GTNAC 1 cut(s) 148
MboII GAAGA 5 cut(s) 112, 208, 355, 376, 445
MhlI GDGCHC 1 cut(s) 129
MlsI TGGCCA 2 cut(s) 419, 458
MluCI AATT 1 cut(s) 154
MluNI TGGCCA 2 cut(s) 419, 458
MlyI GAGTC 2 cut(s) 558, 619
MmeI TCCRAC 4 cut(s) 94, 251, 522, 579
Mox20I TGGCCA 2 cut(s) 419, 458
MscI TGGCCA 2 cut(s) 419, 458
MseI TTAA 1 cut(s) 660
MslI CAYNNNNRTG 2 cut(s) 201, 619
Msp20I TGGCCA 2 cut(s) 419, 458
MspA1I CMGCKG 2 cut(s) 79, 337
MspI CCGG 3 cut(s) 430, 451, 463
MspR9I CCNGG 4 cut(s) 95, 451, 463, 464
Mva1269I GAATGC 1 cut(s) 253
MvaI CCWGG 1 cut(s) 95
MwoI GCNNNNNNNGC 3 cut(s) 185, 451, 455
NciI CCSGG 3 cut(s) 451, 463, 464
NcoI CCATGG 1 cut(s) 420
NlaIII CATG 4 cut(s) 261, 424, 556, 652
NmeAIII GCCGAG 2 cut(s) 289, 517
NmuCI GTSAC 1 cut(s) 148
PagI TCATGA 1 cut(s) 552
PaqCI CACCTGC 1 cut(s) 403
PctI GAATGC 1 cut(s) 253
PfeI GAWTC 1 cut(s) 367
PflMI CCANNNNNTGG 1 cut(s) 136
PkrI GCNGC 9 cut(s) 81, 190, 193, 315, 333, 336, 411, 562, 640
PleI GAGTC 2 cut(s) 557, 618
PpsI GAGTC 2 cut(s) 557, 618
Psp124BI GAGCTC 1 cut(s) 129
Psp6I CCWGG 1 cut(s) 93
PspGI CCWGG 1 cut(s) 93
PspPI GGNCC 2 cut(s) 231, 448
PstI CTGCAG 1 cut(s) 565
PstNI CAGNNNCTG 2 cut(s) 298, 337
PvuII CAGCTG 2 cut(s) 79, 337
RsaI GTAC 1 cut(s) 374
RsaNI GTAC 1 cut(s) 373
RseI CAYNNNNRTG 2 cut(s) 201, 619
SacI GAGCTC 1 cut(s) 129
SaqAI TTAA 1 cut(s) 660
SatI GCNGC 9 cut(s) 80, 189, 192, 314, 332, 335, 410, 561, 639
Sau96I GGNCC 2 cut(s) 231, 448
SchI GAGTC 2 cut(s) 558, 619
ScrFI CCNGG 4 cut(s) 95, 451, 463, 464
SduI GDGCHC 1 cut(s) 129
SfaNI GCATC 1 cut(s) 519
SfcI CTRYAG 1 cut(s) 561
SfiI GGCCNNNNNGGCC 1 cut(s) 455
SinI GGWCC 1 cut(s) 231
SmaI CCCGGG 1 cut(s) 464
SmiMI CAYNNNNRTG 2 cut(s) 201, 619
SmlI CTYRAG 2 cut(s) 59, 83
SmoI CTYRAG 2 cut(s) 59, 83
Sse9I AATT 1 cut(s) 154
SsiI CCGC 2 cut(s) 316, 477
SstI GAGCTC 1 cut(s) 129
StyD4I CCNGG 4 cut(s) 93, 449, 461, 462
StyI CCWWGG 2 cut(s) 144, 420
TaaI ACNGT 2 cut(s) 439, 487
TaiI ACGT 1 cut(s) 324
TasI AATT 1 cut(s) 154
TfiI GAWTC 1 cut(s) 367
Tru1I TTAA 1 cut(s) 660
Tru9I TTAA 1 cut(s) 660
TscAI CASTG 2 cut(s) 181, 626
TseFI GTSAC 1 cut(s) 148
TseI GCWGC 9 cut(s) 79, 188, 191, 313, 331, 334, 409, 560, 638
Tsp45I GTSAC 1 cut(s) 148
TspDTI ATGAA 5 cut(s) 17, 101, 246, 536, 569
TspMI CCCGGG 1 cut(s) 462
TspRI CASTG 2 cut(s) 181, 626
Van91I CCANNNNNTGG 1 cut(s) 136
VpaK11BI GGWCC 1 cut(s) 231
XapI RAATTY 1 cut(s) 154
XmaI CCCGGG 1 cut(s) 462
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.