Rroxscaffold_1G00004410

No description available

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0000636
Physical Location & Seq
Reverse (-)
6097919 .. 6101118
3200 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00004410.1

Sequence Viewer

Length: 732 bp
ATGCCCACGGGTTTTCCGGCTCTGTGCATAAGAAACATTCGACCTGCTTCACCAAAAATTTCTATTTGCCCCCTAGTTGGGGTGACGAATGCATGTGAGCCCCAACAAATCTCGCAACTCTCGCACAGTTGGCTCGATGGGGGAACATGCAGCGAGATGGAAGCCGCTAGGCCTGTGTATATCAGTGGAAGTGAAGAGGCGTTTGGGAAAATCAGAAAGTTTCCGTATGAAAAGAACAAGGACAAAGCCTTTGAGCATCATGCTGGTTGGTTGATGGAGGAGTACACCATTAATCAAGCACCGGACTTGGCTCTGTGCAGACAAAAAGTGAATGATAAAGGAGGAGGAAGAAACAAGAGGAAGTTTGTTGCTGAGAAGAATGAGGATCAGAATGTGAGAAGCAAAAAGTGTTTCAAAAACCGAAAAGTTGAACCGAGAAGAGATCAAACTAGTTTCATGTGTGAGCAGCAACAAGAAGGCAGTGCTTCCTTTGCTAGTACTACTTCACAGCTAATTCCCTATCATCATGAAGATGATCAAGTTGTTCAGGTGGTTCCGGAGAACAATTACGATTATGACGAGCTGCAGCAGATCCTCTTTAGCGATGATGATTGTATGGATGAGAATCTAAAGTTCTCTCCCACTATCTTGTTTGATGATAATGACGACATGTTGAATGATGCTCAGATTATAGCTTCTGTTGATCAATCAATAGCTAGTGAGCAACAATAA
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
No domains found.

Protein Analysis

243

Amino Acids

27.58

Weight (kDa)

4.91

Isoelectric Point (pI)

56.6

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: OG0000636)

Species Orthologous Gene IDs
fragaria_vesca FvH4_3g36290 FvH4_5g27770 FvH4_5g29860 FvH4_5g37342 FvH4_5g37877 FvH4_5g37880 FvH4_5g37900 FvH4_6g40020
rosa_chinensis RchiOBHm_Chr7g0227221 RchiOBHm_Chr7g0239011
rosa_multiflora Rmu_co8202712.1_g000001 Rmu_sc0000477.1_g000006 Rmu_sc0001047.1_g000050 Rmu_sc0001371.1_g000021 Rmu_sc0002449.1_g000018 Rmu_sc0002988.1_g000003 Rmu_sc0003089.1_g000031 Rmu_sc0004062.1_g000013 Rmu_sc0004132.1_g000001 Rmu_sc0004277.1_g000045 Rmu_sc0004567.1_g000017 Rmu_sc0005327.1_g000024 Rmu_sc0005651.1_g000005 Rmu_sc0006669.1_g000014 Rmu_sc0018004.1_g000002 Rmu_sc0018978.1_g000001 Rmu_sc0021209.1_g000001 Rmu_sc0034369.1_g000001 Rmu_ssc0000398.1_g000019
rosa_roxburghii Rroxscaffold_1G00004410 Rroxscaffold_3G00220090 Rroxscaffold_3G00221380 Rroxscaffold_3G00222090 Rroxscaffold_3G00223100 Rroxscaffold_6G00400160 Rroxscaffold_7G00204490 Rroxscaffold_7G00204500
rosa_rugosa Rorug02G0147900 Rorug03G0117000 Rorug03G0194000 Rorug04G0112500 Rorug05G0218600 Rorug05G0218700 Rorug05G0218800 Rorug05G0218900 Rorug05G0219000 Rorug05G0219000 Rorug05G0219000 Rorug05G0219100 Rorug05G0220000 Rorug05G0574900 Rorug07G0311900 Rorug07G0312000 Rorug07G0324500 Rorug07G0324600
rosa_samantha Rh3BG280100 Rh4BG071800 Rh5BG306100 Rh5BG308200 Rh5BG313000 Rh5BG335200 Rh5BG532100 Rh5BG532200 Rh5CG556100 Rh5DG315400 Rh5DG318300 Rh5DG318400 Rh5DG347500 Rh6CG116800 Rh7BG420800 Rh7BG437600 Rh7BG452200 Rh7CG484800 Rh7CG496900 Rh7DG453200 Rh7DG464300
rosa_wichuraiana Rw7G039600 Rw7G041070

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 52
AccIII TCCGGA 1 cut(s) 556
AciI CCGC 1 cut(s) 165
AclWI GGATC 2 cut(s) 393, 586
AcsI RAATTY 1 cut(s) 57
AfaI GTAC 2 cut(s) 284, 499
AfiI CCNNNNNNNGG 3 cut(s) 77, 78, 79
AflIII ACRYGT 1 cut(s) 669
AgsI TTSAA 3 cut(s) 415, 431, 676
AhlI ACTAGT 1 cut(s) 449
AjuI GAANNNNNNNTTGG 2 cut(s) 186, 218
AluBI AGCT 4 cut(s) 511, 583, 695, 716
AluI AGCT 4 cut(s) 511, 583, 695, 716
AlwI GGATC 2 cut(s) 393, 586
Aor13HI TCCGGA 1 cut(s) 556
AoxI GGCC 1 cut(s) 170
ApeKI GCWGC 4 cut(s) 150, 466, 583, 586
ApoI RAATTY 1 cut(s) 57
ArsI GACNNNNNNTTYG 2 cut(s) 233, 265
AseI ATTAAT 1 cut(s) 291
AsuHPI GGTGA 2 cut(s) 42, 94
BanII GRGCYC 1 cut(s) 102
BbvI GCAGC 4 cut(s) 162, 478, 570, 598
BccI CCATC 3 cut(s) 131, 151, 268
BclI TGATCA 2 cut(s) 535, 703
BcuI ACTAGT 1 cut(s) 449
BfaI CTAG 5 cut(s) 74, 168, 450, 495, 717
BfmI CTRYAG 1 cut(s) 584
BfuAI ACCTGC 1 cut(s) 52
BisI GCNGC 5 cut(s) 151, 165, 467, 584, 587
BlsI GCNGC 5 cut(s) 152, 166, 468, 585, 588
BmcAI AGTACT 1 cut(s) 499
BmiI GGNNCC 1 cut(s) 555
BmsI GCATC 2 cut(s) 265, 670
BsaBI GATNNNNATC 1 cut(s) 624
BsaJI CCNNGG 1 cut(s) 6
BsaWI WCCGGW 2 cut(s) 301, 556
Bsc4I CCNNNNNNNGG 3 cut(s) 77, 78, 79
Bse8I GATNNNNATC 1 cut(s) 624
BseAI TCCGGA 1 cut(s) 556
BseDI CCNNGG 1 cut(s) 6
BseGI GGATG 1 cut(s) 625
BseJI GATNNNNATC 1 cut(s) 624
BseLI CCNNNNNNNGG 3 cut(s) 77, 78, 79
BseMII CTCAG 2 cut(s) 363, 698
BseRI GAGGAG 2 cut(s) 293, 357
BseXI GCAGC 4 cut(s) 162, 478, 570, 598
BsgI GTGCAG 1 cut(s) 337
BshFI GGCC 1 cut(s) 172
BsiSI CCGG 3 cut(s) 17, 302, 557
BslI CCNNNNNNNGG 3 cut(s) 77, 78, 79
BsmI GAATGC 1 cut(s) 94
BsnI GGCC 1 cut(s) 172
Bsp1286I GDGCHC 1 cut(s) 102
Bsp13I TCCGGA 1 cut(s) 556
Bsp143I GATC 5 cut(s) 385, 442, 535, 591, 703
BspACI CCGC 1 cut(s) 165
BspANI GGCC 1 cut(s) 172
BspCNI CTCAG 2 cut(s) 364, 697
BspEI TCCGGA 1 cut(s) 556
BspHI TCATGA 1 cut(s) 526
BspLI GGNNCC 1 cut(s) 555
BspMAI CTGCAG 1 cut(s) 588
BspMI ACCTGC 1 cut(s) 52
BspPI GGATC 2 cut(s) 393, 586
BssECI CCNNGG 1 cut(s) 6
BssMI GATC 5 cut(s) 385, 442, 535, 591, 703
Bst4CI ACNGT 1 cut(s) 128
Bst6I CTCTTC 2 cut(s) 189, 433
BstDEI CTNAG 2 cut(s) 372, 684
BstDSI CCRYGG 1 cut(s) 6
BstF5I GGATG 1 cut(s) 625
BstKTI GATC 5 cut(s) 388, 445, 538, 594, 706
BstMBI GATC 5 cut(s) 385, 442, 535, 591, 703
BstMWI GCNNNNNNNGC 3 cut(s) 121, 130, 491
BstNSI RCATGY 3 cut(s) 96, 150, 673
BstSFI CTRYAG 1 cut(s) 584
BstV1I GCAGC 4 cut(s) 162, 478, 570, 598
BstX2I RGATCY 1 cut(s) 591
BstYI RGATCY 1 cut(s) 591
BsuRI GGCC 1 cut(s) 172
BtgI CCRYGG 1 cut(s) 6
BtgZI GCGATG 1 cut(s) 618
BtsCI GGATG 1 cut(s) 625
BtsI GCAGTG 1 cut(s) 487
BtsIMutI CAGTG 2 cut(s) 190, 487
BveI ACCTGC 1 cut(s) 52
CciI TCATGA 1 cut(s) 526
Csp6I GTAC 2 cut(s) 283, 498
CviAII CATG 6 cut(s) 93, 147, 260, 457, 527, 670
CviQI GTAC 2 cut(s) 283, 498
DdeI CTNAG 2 cut(s) 372, 684
DpnI GATC 5 cut(s) 387, 444, 537, 593, 705
DpnII GATC 5 cut(s) 385, 442, 535, 591, 703
Eam1104I CTCTTC 2 cut(s) 189, 433
EarI CTCTTC 2 cut(s) 189, 433
Eco147I AGGCCT 1 cut(s) 172
Eco24I GRGCYC 1 cut(s) 102
EcoT22I ATGCAT 1 cut(s) 94
EcoT38I GRGCYC 1 cut(s) 102
FaeI CATG 6 cut(s) 96, 150, 263, 460, 530, 673
FatI CATG 6 cut(s) 92, 146, 259, 456, 526, 669
FbaI TGATCA 2 cut(s) 535, 703
Fnu4HI GCNGC 5 cut(s) 151, 165, 467, 584, 587
FokI GGATG 1 cut(s) 632
FriOI GRGCYC 1 cut(s) 102
Fsp4HI GCNGC 5 cut(s) 151, 165, 467, 584, 587
FspBI CTAG 5 cut(s) 74, 168, 450, 495, 717
GluI GCNGC 5 cut(s) 151, 165, 467, 584, 587
HaeIII GGCC 1 cut(s) 172
HapII CCGG 3 cut(s) 17, 302, 557
Hin1II CATG 6 cut(s) 96, 150, 263, 460, 530, 673
HinfI GANTC 1 cut(s) 625
HpaII CCGG 3 cut(s) 17, 302, 557
HphI GGTGA 2 cut(s) 42, 94
Hpy166II GTNNAC 1 cut(s) 285
Hpy188I TCNGA 3 cut(s) 215, 390, 687
Hpy188III TCNNGA 2 cut(s) 527, 557
Hpy8I GTNNAC 1 cut(s) 285
HpyAV CCTTC 1 cut(s) 470
HpyCH4III ACNGT 1 cut(s) 128
HpyCH4V TGCA 5 cut(s) 27, 92, 150, 318, 586
HpyF10VI GCNNNNNNNGC 3 cut(s) 121, 130, 491
HpyF3I CTNAG 2 cut(s) 372, 684
Hsp92II CATG 6 cut(s) 96, 150, 263, 460, 530, 673
Kpn2I TCCGGA 1 cut(s) 556
Ksp22I TGATCA 2 cut(s) 535, 703
Kzo9I GATC 5 cut(s) 385, 442, 535, 591, 703
LpnPI CCDG 7 cut(s) 30, 57, 186, 249, 315, 533, 570
Lsp1109I GCAGC 4 cut(s) 162, 478, 570, 598
LweI GCATC 2 cut(s) 265, 670
MaeI CTAG 5 cut(s) 74, 168, 450, 495, 717
MaeIII GTNAC 1 cut(s) 82
MalI GATC 5 cut(s) 387, 444, 537, 593, 705
MboI GATC 5 cut(s) 385, 442, 535, 591, 703
MboII GAAGA 5 cut(s) 206, 360, 388, 450, 542
MflI RGATCY 1 cut(s) 591
MhlI GDGCHC 1 cut(s) 102
MluCI AATT 3 cut(s) 57, 513, 565
MnlI CCTC 7 cut(s) 190, 271, 335, 338, 351, 376, 605
Mph1103I ATGCAT 1 cut(s) 94
MroI TCCGGA 1 cut(s) 556
MseI TTAA 1 cut(s) 291
MslI CAYNNNNRTG 1 cut(s) 531
MspI CCGG 3 cut(s) 17, 302, 557
Mva1269I GAATGC 1 cut(s) 94
MwoI GCNNNNNNNGC 3 cut(s) 121, 130, 491
NdeII GATC 5 cut(s) 385, 442, 535, 591, 703
NlaIII CATG 6 cut(s) 96, 150, 263, 460, 530, 673
NlaIV GGNNCC 1 cut(s) 555
NmuCI GTSAC 1 cut(s) 82
NsiI ATGCAT 1 cut(s) 94
NspI RCATGY 3 cut(s) 96, 150, 673
PagI TCATGA 1 cut(s) 526
PceI AGGCCT 1 cut(s) 172
PciI ACATGT 1 cut(s) 669
PcsI WCGNNNNNNNCGW 1 cut(s) 576
PctI GAATGC 1 cut(s) 94
PfeI GAWTC 1 cut(s) 625
PkrI GCNGC 5 cut(s) 152, 166, 468, 585, 588
PscI ACATGT 1 cut(s) 669
PshBI ATTAAT 1 cut(s) 291
PspN4I GGNNCC 1 cut(s) 555
PstI CTGCAG 1 cut(s) 588
PsuI RGATCY 1 cut(s) 591
RsaI GTAC 2 cut(s) 284, 499
RsaNI GTAC 2 cut(s) 283, 498
RseI CAYNNNNRTG 1 cut(s) 531
SaqAI TTAA 1 cut(s) 291
SatI GCNGC 5 cut(s) 151, 165, 467, 584, 587
Sau3AI GATC 5 cut(s) 385, 442, 535, 591, 703
ScaI AGTACT 1 cut(s) 499
SduI GDGCHC 1 cut(s) 102
SetI ASST 6 cut(s) 46, 513, 552, 585, 697, 718
SfaNI GCATC 2 cut(s) 265, 670
SfcI CTRYAG 1 cut(s) 584
SmiMI CAYNNNNRTG 1 cut(s) 531
SpeI ACTAGT 1 cut(s) 449
Sse9I AATT 3 cut(s) 57, 513, 565
SseBI AGGCCT 1 cut(s) 172
SsiI CCGC 1 cut(s) 165
SspMI CTAG 5 cut(s) 74, 168, 450, 495, 717
StuI AGGCCT 1 cut(s) 172
TaaI ACNGT 1 cut(s) 128
TaqI TCGA 2 cut(s) 40, 135
TasI AATT 3 cut(s) 57, 513, 565
TatI WGTACW 2 cut(s) 282, 497
TauI GCSGC 1 cut(s) 167
TfiI GAWTC 1 cut(s) 625
Tru1I TTAA 1 cut(s) 291
Tru9I TTAA 1 cut(s) 291
TscAI CASTG 2 cut(s) 190, 487
TseFI GTSAC 1 cut(s) 82
TseI GCWGC 4 cut(s) 150, 466, 583, 586
Tsp45I GTSAC 1 cut(s) 82
TspDTI ATGAA 3 cut(s) 243, 445, 543
TspGWI ACGGA 1 cut(s) 213
TspRI CASTG 2 cut(s) 190, 487
VspI ATTAAT 1 cut(s) 291
XapI RAATTY 1 cut(s) 57
XceI RCATGY 3 cut(s) 96, 150, 673
XspI CTAG 5 cut(s) 74, 168, 450, 495, 717
ZrmI AGTACT 1 cut(s) 499
Zsp2I ATGCAT 1 cut(s) 94
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.