Rroxscaffold_3G00270050

No description available

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000003
OG0000512
Physical Location & Seq
Reverse (-)
62720434 .. 62734173
13740 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_3G00270050.1

Sequence Viewer

Length: 870 bp
ATGACCCGTGCCCAAGACTCGACCAAATATGTGGGAAAGCCCCACCAAGCCCGAAGAGTTCCAACCGCATTCCCACCGTCGCACGCCCACCGGCATCCTCGCATCGAGCCTTCACCGCCGCCGCAAAGATCGCCATTAATACGCGCCACTCTCCGGATCGGAGATGACGACTCCCTCGTTTCCCTAAATGCAAGATATCCACTCGTGGCTCAAATAGCTGCTAGCAAAATGAGTTTTTCTGCGGCTATTACAAAACTGCTGCTAGTTCAGAAACTTAACCCATTTCACGGTCTGCCAACTCCTCCTGACCCAGAAGCAGTGGTGCCCGATCATCAAGTACCACGGCGCCAAAACTTAGACTGGGCTAAGATTATTGTCGTGTTTAGCTTGGCATCAGCAATCGACATAGCTCTCCTATCAGTCCAAGTTCACTCCCAACTTCCTATGATCTTTCACTTTCTCGACCTTGCTGTCTTGCTTGCCTTTACTTGTTTCTTCACAAGCAAGTTGATTCATTCAAACTGTCCACTAGTCGCTCAGGTGCTCGAGCGATTTGGTATCTTCTTTGGCGTCAGTGCCTTCTTCATATGCATCACAGTTCCGTTTCCGGCTGTCTGGTTCAAATGCATAGGATGCTTCATCGATCTACGCAGTCTCATGGCCTGTGCTGCCACCTTCCTCACCTTGGCTTTGGCCTCGCCGTTCCTCGCCGTCGAGATTGAAAAGGCGGCACTCTTCGACTTCAACCCGACCATACCAATCCAGGCCATCATGGACGAGCGCGACGCCGACATCGGGGAGATGATGAGAGGGAGACCAAAAGCCGAACTGTGGGGGTTCGTGCTCACTCCAAGCTTGGAGCTTGATTGA
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

289

Amino Acids

32.03

Weight (kDa)

8.24

Isoelectric Point (pI)

44.19

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: OG0000512)

Species Orthologous Gene IDs
fragaria_vesca FvH4_5g13130 FvH4_5g13140 FvH4_5g13141 FvH4_5g13170 FvH4_5g13220 FvH4_5g13221 FvH4_5g13222 FvH4_5g13223 FvH4_5g13230
malus_domestica MD03G1009100.v1.1 MD03G1009500.v1.1 MD03G1009600.v1.1 MD03G1010100.v1.1 MD03G1011400.v1.1 MD11G1013400.v1.1 MD11G1013900.v1.1 MD12G1151700.v1.1 MD12G1151900.v1.1 MD14G1141800.v1.1
prunus_persica Prupe.1G109400_v2.0.a1 Prupe.3G028900_v2.0.a1 Prupe.6G011200_v2.0.a1 Prupe.6G011700_v2.0.a1 Prupe.6G011800_v2.0.a1
pyrus_communis pycom03g01000 pycom07g22580 pycom11g00910 pycom11g00930
rosa_chinensis RchiOBHm_Chr7g0240781 RchiOBHm_Chr7g0241491
rosa_laevigata RLG00000000572 RLG00000005009 RLG00000014262 RLG00000021010 RLG00000021011 RLG00000026751
rosa_multiflora Rmu_sc0000215.1_g000008 Rmu_sc0001275.1_g000010 Rmu_sc0002761.1_g000010 Rmu_sc0003825.1_g000034 Rmu_sc0004712.1_g000019 Rmu_sc0004712.1_g000020 Rmu_sc0004712.1_g000025 Rmu_sc0004712.1_g000028 Rmu_sc0004712.1_g000030 Rmu_sc0004821.1_g000003 Rmu_sc0005888.1_g000011 Rmu_sc0007533.1_g000008 Rmu_sc0007533.1_g000010 Rmu_sc0008698.1_g000006 Rmu_sc0010322.1_g000017 Rmu_sc0010483.1_g000002 Rmu_sc0013122.1_g000003
rosa_roxburghii Rroxscaffold_176G00431730 Rroxscaffold_3G00219000 Rroxscaffold_3G00269990 Rroxscaffold_3G00270040 Rroxscaffold_3G00270050 Rroxscaffold_3G00270060 Rroxscaffold_4G00283100 Rroxscaffold_6G00430000
rosa_rugosa Rorug01G0382000 Rorug02G0463100 Rorug02G0644300 Rorug06G0011800 Rorug06G0461600 Rorug07G0344600 Rorug07G0344700
rosa_samantha Rh2AG527500 Rh2AG527800 Rh2CG512000 Rh2CG512200 Rh2DG550800 Rh2DG551000 Rh3CG048300 Rh3DG049200 Rh7AG062500 Rh7AG062700 Rh7AG062800 Rh7BG062900 Rh7BG063000 Rh7BG063100 Rh7BG469800 Rh7DG062500 Rh7DG062800 Rh7DG063400 Rh7DG063500

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 470
AccB1I GGYRCC 2 cut(s) 322, 345
AccII CGCG 2 cut(s) 144, 783
AccIII TCCGGA 1 cut(s) 153
AciI CCGC 6 cut(s) 66, 116, 119, 122, 242, 728
AclWI GGATC 1 cut(s) 164
AcyI GRCGYC 3 cut(s) 346, 570, 786
AfaI GTAC 1 cut(s) 339
AfiI CCNNNNNNNGG 5 cut(s) 153, 287, 685, 795, 831
AgsI TTSAA 4 cut(s) 519, 622, 722, 745
AhlI ACTAGT 1 cut(s) 529
AjnI CCWGG 1 cut(s) 762
AluBI AGCT 5 cut(s) 218, 387, 410, 855, 862
AluI AGCT 5 cut(s) 218, 387, 410, 855, 862
Alw21I GWGCWC 2 cut(s) 546, 846
Alw26I GTCTC 2 cut(s) 659, 808
AlwI GGATC 1 cut(s) 164
Ama87I CYCGRG 1 cut(s) 545
Aor13HI TCCGGA 1 cut(s) 153
AoxI GGCC 3 cut(s) 660, 693, 765
ApeKI GCWGC 3 cut(s) 218, 259, 668
AseI ATTAAT 1 cut(s) 137
AspLEI GCGC 3 cut(s) 146, 348, 783
AsuHPI GGTGA 2 cut(s) 105, 673
AsuNHI GCTAGC 1 cut(s) 221
AvaI CYCGRG 1 cut(s) 545
BaeGI GKGCMC 2 cut(s) 13, 327
BanI GGYRCC 2 cut(s) 322, 345
BauI CACGAG 1 cut(s) 203
Bbv12I GWGCWC 2 cut(s) 546, 846
BbvI GCAGC 3 cut(s) 205, 246, 655
BccI CCATC 1 cut(s) 776
BceAI ACGGC 3 cut(s) 359, 685, 695
BciT130I CCWGG 1 cut(s) 764
BcoDI GTCTC 2 cut(s) 659, 808
BcuI ACTAGT 1 cut(s) 529
BfaI CTAG 3 cut(s) 222, 263, 530
BfoI RGCGCY 1 cut(s) 349
BisI GCNGC 7 cut(s) 119, 122, 219, 243, 260, 669, 729
BlsI GCNGC 7 cut(s) 120, 123, 220, 244, 261, 670, 730
Bme1390I CCNGG 1 cut(s) 764
BmeT110I CYCGRG 1 cut(s) 545
BmiI GGNNCC 2 cut(s) 324, 347
BmrFI CCNGG 1 cut(s) 764
BmrI ACTGGG 1 cut(s) 370
BmsI GCATC 5 cut(s) 103, 111, 401, 600, 623
BmtI GCTAGC 1 cut(s) 225
BmuI ACTGGG 1 cut(s) 370
Bpu10I CCTNAGC 1 cut(s) 537
Bsa29I ATCGAT 1 cut(s) 642
BsaHI GRCGYC 3 cut(s) 346, 570, 786
BsaI GGTCTC 1 cut(s) 808
BsaJI CCNNGG 2 cut(s) 341, 684
BsaWI WCCGGW 1 cut(s) 153
Bsc4I CCNNNNNNNGG 5 cut(s) 153, 287, 685, 795, 831
Bse118I RCCGGY 1 cut(s) 90
Bse1I ACTGG 1 cut(s) 365
BseAI TCCGGA 1 cut(s) 153
BseBI CCWGG 1 cut(s) 764
BseCI ATCGAT 1 cut(s) 642
BseDI CCNNGG 2 cut(s) 341, 684
BseGI GGATG 2 cut(s) 94, 638
BseLI CCNNNNNNNGG 5 cut(s) 153, 287, 685, 795, 831
BseMII CTCAG 1 cut(s) 551
BseNI ACTGG 1 cut(s) 365
BseRI GAGGAG 1 cut(s) 291
BseSI GKGCMC 2 cut(s) 13, 327
BseXI GCAGC 3 cut(s) 205, 246, 655
Bsh1236I CGCG 2 cut(s) 144, 783
BshFI GGCC 3 cut(s) 662, 695, 767
BshNI GGYRCC 2 cut(s) 322, 345
BshVI ATCGAT 1 cut(s) 642
BsiHKAI GWGCWC 2 cut(s) 546, 846
BsiHKCI CYCGRG 1 cut(s) 545
BsiSI CCGG 3 cut(s) 91, 154, 608
BslI CCNNNNNNNGG 5 cut(s) 153, 287, 685, 795, 831
BsmAI GTCTC 2 cut(s) 659, 808
BsmI GAATGC 1 cut(s) 68
BsnI GGCC 3 cut(s) 662, 695, 767
Bso31I GGTCTC 1 cut(s) 808
BsoBI CYCGRG 1 cut(s) 545
Bsp1286I GDGCHC 4 cut(s) 13, 327, 546, 846
Bsp13I TCCGGA 1 cut(s) 153
Bsp143I GATC 5 cut(s) 128, 156, 328, 447, 643
BspACI CCGC 6 cut(s) 66, 116, 119, 122, 242, 728
BspANI GGCC 3 cut(s) 662, 695, 767
BspCNI CTCAG 1 cut(s) 550
BspDI ATCGAT 1 cut(s) 642
BspEI TCCGGA 1 cut(s) 153
BspFNI CGCG 2 cut(s) 144, 783
BspLI GGNNCC 2 cut(s) 324, 347
BspOI GCTAGC 1 cut(s) 225
BspPI GGATC 1 cut(s) 164
BspT107I GGYRCC 2 cut(s) 322, 345
BspTNI GGTCTC 1 cut(s) 808
BsrFI RCCGGY 1 cut(s) 90
BsrI ACTGG 1 cut(s) 365
BssAI RCCGGY 1 cut(s) 90
BssECI CCNNGG 2 cut(s) 341, 684
BssMI GATC 5 cut(s) 128, 156, 328, 447, 643
BssNI GRCGYC 3 cut(s) 346, 570, 786
BssSI CACGAG 1 cut(s) 203
BssT1I CCWWGG 1 cut(s) 684
Bst2BI CACGAG 1 cut(s) 203
Bst2UI CCWGG 1 cut(s) 764
Bst4CI ACNGT 5 cut(s) 78, 290, 524, 598, 831
Bst6I CTCTTC 2 cut(s) 49, 740
BstACI GRCGYC 3 cut(s) 346, 570, 786
BstAPI GCANNNNNTGC 1 cut(s) 633
BstC8I GCNNGC 3 cut(s) 84, 223, 480
BstDEI CTNAG 3 cut(s) 355, 366, 537
BstDSI CCRYGG 1 cut(s) 341
BstF5I GGATG 2 cut(s) 94, 638
BstFNI CGCG 2 cut(s) 144, 783
BstH2I RGCGCY 1 cut(s) 349
BstHHI GCGC 3 cut(s) 146, 348, 783
BstKTI GATC 5 cut(s) 131, 159, 331, 450, 646
BstMAI GTCTC 2 cut(s) 659, 808
BstMBI GATC 5 cut(s) 128, 156, 328, 447, 643
BstMWI GCNNNNNNNGC 5 cut(s) 115, 130, 215, 633, 668
BstNI CCWGG 1 cut(s) 764
BstSCI CCNGG 1 cut(s) 762
BstSLI GKGCMC 2 cut(s) 13, 327
BstUI CGCG 2 cut(s) 144, 783
BstV1I GCAGC 3 cut(s) 205, 246, 655
BstXI CCANNNNNNTGG 1 cut(s) 31
Bsu15I ATCGAT 1 cut(s) 642
BsuRI GGCC 3 cut(s) 662, 695, 767
BsuTUI ATCGAT 1 cut(s) 642
BtgI CCRYGG 1 cut(s) 341
BtsCI GGATG 2 cut(s) 94, 638
BtsI GCAGTG 1 cut(s) 324
BtsIMutI CAGTG 2 cut(s) 324, 580
Cac8I GCNNGC 3 cut(s) 84, 223, 480
CfoI GCGC 3 cut(s) 146, 348, 783
Cfr10I RCCGGY 1 cut(s) 90
ClaI ATCGAT 1 cut(s) 642
CseI GACGC 2 cut(s) 559, 794
Csp6I GTAC 1 cut(s) 338
CviAII CATG 2 cut(s) 658, 772
CviQI GTAC 1 cut(s) 338
DdeI CTNAG 3 cut(s) 355, 366, 537
DinI GGCGCC 1 cut(s) 347
DpnI GATC 5 cut(s) 130, 158, 330, 449, 645
DpnII GATC 5 cut(s) 128, 156, 328, 447, 643
DrdI GACNNNNNNGTC 1 cut(s) 470
DseDI GACNNNNNNGTC 1 cut(s) 470
Eam1104I CTCTTC 2 cut(s) 49, 740
EarI CTCTTC 2 cut(s) 49, 740
Eco130I CCWWGG 1 cut(s) 684
Eco31I GGTCTC 1 cut(s) 808
Eco32I GATATC 1 cut(s) 197
Eco88I CYCGRG 1 cut(s) 545
EcoRII CCWGG 1 cut(s) 762
EcoRV GATATC 1 cut(s) 197
EcoT14I CCWWGG 1 cut(s) 684
EcoT22I ATGCAT 2 cut(s) 593, 629
EgeI GGCGCC 1 cut(s) 347
EheI GGCGCC 1 cut(s) 347
ErhI CCWWGG 1 cut(s) 684
FaeI CATG 2 cut(s) 661, 775
FaiI YATR 9 cut(s) 30, 407, 446, 587, 589, 629, 659, 755, 773
FatI CATG 2 cut(s) 657, 771
FauNDI CATATG 1 cut(s) 587
Fnu4HI GCNGC 7 cut(s) 119, 122, 219, 243, 260, 669, 729
FokI GGATG 2 cut(s) 81, 645
Fsp4HI GCNGC 7 cut(s) 119, 122, 219, 243, 260, 669, 729
FspBI CTAG 3 cut(s) 222, 263, 530
GlaI GCGC 3 cut(s) 145, 347, 782
GluI GCNGC 7 cut(s) 119, 122, 219, 243, 260, 669, 729
HaeII RGCGCY 1 cut(s) 349
HaeIII GGCC 3 cut(s) 662, 695, 767
HapII CCGG 3 cut(s) 91, 154, 608
HgaI GACGC 2 cut(s) 559, 794
HhaI GCGC 3 cut(s) 146, 348, 783
Hin1I GRCGYC 3 cut(s) 346, 570, 786
Hin1II CATG 2 cut(s) 661, 775
Hin6I GCGC 3 cut(s) 144, 346, 781
HinP1I GCGC 3 cut(s) 144, 346, 781
HindIII AAGCTT 1 cut(s) 853
HinfI GANTC 3 cut(s) 17, 170, 511
HpaII CCGG 3 cut(s) 91, 154, 608
HphI GGTGA 2 cut(s) 105, 673
Hpy166II GTNNAC 2 cut(s) 430, 527
Hpy188I TCNGA 2 cut(s) 161, 270
Hpy188III TCNNGA 4 cut(s) 154, 305, 461, 715
Hpy8I GTNNAC 2 cut(s) 430, 527
Hpy99I CGWCG 3 cut(s) 82, 716, 788
HpyAV CCTTC 3 cut(s) 120, 589, 685
HpyCH4III ACNGT 5 cut(s) 78, 290, 524, 598, 831
HpyCH4V TGCA 3 cut(s) 191, 591, 627
HpyF10VI GCNNNNNNNGC 5 cut(s) 115, 130, 215, 633, 668
HpyF3I CTNAG 3 cut(s) 355, 366, 537
Hsp92I GRCGYC 3 cut(s) 346, 570, 786
Hsp92II CATG 2 cut(s) 661, 775
HspAI GCGC 3 cut(s) 144, 346, 781
KasI GGCGCC 1 cut(s) 345
Kpn2I TCCGGA 1 cut(s) 153
Kzo9I GATC 5 cut(s) 128, 156, 328, 447, 643
LmnI GCTCC 1 cut(s) 859
Lsp1109I GCAGC 3 cut(s) 205, 246, 655
LweI GCATC 5 cut(s) 103, 111, 401, 600, 623
MaeI CTAG 3 cut(s) 222, 263, 530
MalI GATC 5 cut(s) 130, 158, 330, 449, 645
MboI GATC 5 cut(s) 128, 156, 328, 447, 643
MboII GAAGA 5 cut(s) 66, 487, 553, 574, 727
MhlI GDGCHC 4 cut(s) 13, 327, 546, 846
Mly113I GGCGCC 1 cut(s) 346
MlyI GAGTC 2 cut(s) 11, 164
MmeI TCCRAC 1 cut(s) 86
MnlI CCTC 7 cut(s) 108, 185, 312, 689, 706, 716, 803
Mph1103I ATGCAT 2 cut(s) 593, 629
MroI TCCGGA 1 cut(s) 153
MseI TTAA 2 cut(s) 137, 276
MspI CCGG 3 cut(s) 91, 154, 608
MspR9I CCNGG 1 cut(s) 764
Mva1269I GAATGC 1 cut(s) 68
MvaI CCWGG 1 cut(s) 764
MvnI CGCG 2 cut(s) 144, 783
MwoI GCNNNNNNNGC 5 cut(s) 115, 130, 215, 633, 668
NarI GGCGCC 1 cut(s) 346
NdeI CATATG 1 cut(s) 587
NdeII GATC 5 cut(s) 128, 156, 328, 447, 643
NheI GCTAGC 1 cut(s) 221
NlaIII CATG 2 cut(s) 661, 775
NlaIV GGNNCC 2 cut(s) 324, 347
NsiI ATGCAT 2 cut(s) 593, 629
PaeR7I CTCGAG 1 cut(s) 545
PcsI WCGNNNNNNNCGW 2 cut(s) 165, 174
PctI GAATGC 1 cut(s) 68
PfeI GAWTC 1 cut(s) 511
PkrI GCNGC 7 cut(s) 120, 123, 220, 244, 261, 670, 730
PleI GAGTC 2 cut(s) 11, 164
PluTI GGCGCC 1 cut(s) 349
PpsI GAGTC 2 cut(s) 11, 164
PshBI ATTAAT 1 cut(s) 137
Psp6I CCWGG 1 cut(s) 762
PspGI CCWGG 1 cut(s) 762
PspN4I GGNNCC 2 cut(s) 324, 347
PspXI VCTCGAGB 1 cut(s) 545
RsaI GTAC 1 cut(s) 339
RsaNI GTAC 1 cut(s) 338
SaqAI TTAA 2 cut(s) 137, 276
SatI GCNGC 7 cut(s) 119, 122, 219, 243, 260, 669, 729
Sau3AI GATC 5 cut(s) 128, 156, 328, 447, 643
SchI GAGTC 2 cut(s) 11, 164
ScrFI CCNGG 1 cut(s) 764
SduI GDGCHC 4 cut(s) 13, 327, 546, 846
SetI ASST 9 cut(s) 220, 389, 412, 468, 543, 677, 686, 857, 864
SfaNI GCATC 5 cut(s) 103, 111, 401, 600, 623
SfoI GGCGCC 1 cut(s) 347
Sfr274I CTCGAG 1 cut(s) 545
SlaI CTCGAG 1 cut(s) 545
SmlI CTYRAG 1 cut(s) 545
SmoI CTYRAG 1 cut(s) 545
SpeI ACTAGT 1 cut(s) 529
SsiI CCGC 6 cut(s) 66, 116, 119, 122, 242, 728
SspDI GGCGCC 1 cut(s) 345
SspMI CTAG 3 cut(s) 222, 263, 530
StyD4I CCNGG 1 cut(s) 762
StyI CCWWGG 1 cut(s) 684
TaaI ACNGT 5 cut(s) 78, 290, 524, 598, 831
TaqI TCGA 8 cut(s) 20, 105, 402, 462, 546, 642, 714, 738
TauI GCSGC 4 cut(s) 121, 124, 245, 731
TfiI GAWTC 1 cut(s) 511
Tru1I TTAA 2 cut(s) 137, 276
Tru9I TTAA 2 cut(s) 137, 276
TscAI CASTG 2 cut(s) 324, 580
TseI GCWGC 3 cut(s) 218, 259, 668
TspDTI ATGAA 3 cut(s) 503, 574, 628
TspGWI ACGGA 1 cut(s) 591
TspRI CASTG 2 cut(s) 324, 580
VspI ATTAAT 1 cut(s) 137
XhoI CTCGAG 1 cut(s) 545
XspI CTAG 3 cut(s) 222, 263, 530
Zsp2I ATGCAT 2 cut(s) 593, 629
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.