Rroxscaffold_1G00043920

Pfam:DUF3633

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0016790
Physical Location & Seq
Forward (+)
62675261 .. 62676494
1234 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00043920.1

Sequence Viewer

Length: 1080 bp
ATGAATTGTTCTCTATATAAGCGCTCAAGTGAGTTTGTTATTTACGTTTCCAATAGTCAACCTTCAAAGCCTTTAGCATTACCTCAAGTGTGTGGGAGGGTGGGAAATATAAATAGGAGGCTAGGTCAGAGCGAGGATCGATCTTATCGTGAAATGGCTACCGCCATTGTCAATAGTACGTACTTTGAGGATACTATGTATGAAGATCAAGATATCGACGATATAGAGCTTGCCATTCAGCTAATTTCCGTTTCAGATCATCAATATGAAAAAGGGCAAAGTCATGCAAATAAGGAAGTTGCTACATCTTCAAGACAACCAATGTTGGTTTGCGATGTTTGTACTAATACAATTATCGAGAGCTTGCATCATCCCACTTATTTCCCAGATGGAGCTCCGGTTTGCTGCGACATAATATGGAAACAAACAATTTGTCCCAAACATCTAGATGATAGAACTCCAATATGCTGTGGCTGCATGAGGTTAAAGACAAGTGATGTAACATATATAAATCTCGGTGATGGTCGGGAAATATGCCGAGATTGTTATTCTACCGCAATCGTCGATATCCGACAATGTGAACCTCTCATGATCCATAGATGTCACGAATTTTTCCGTACACTCAACCTGGACCTTCCGGACGACGTTCGTGTCTTCTTGGTCGACAAGAAAGAGATGGATAGACTTAACTGCAAGCAAGAAACTCCCACGCCTTTCGGGTTGAGGTTGGAGGCAGATATGGGCACCATCACCGGCGTTACAAGTATCAGATTCGGGGAACTGGAAAAGAAGCTGGAAGAAGGAATGTGTCAAGTAATAGGTTGGAAATGGTTGGATTGGGTGGACAGTGAAATTACCTCATCATCATCCGCAACTACTAGTCATCAGCAGGCTCAGTTTCTGAGAAAATTAGTACAAACATACAAGTTTGTGGTGGAAAAGCATGGCTCTGATGAATATGGCCAAGGATTTAGAGAGGTTCAATGGGCAGTTGCAAGATTTGGCCTTGAAACCACAATTGATCATGTGATTACTAGGGAAAGCTTCCGGAAGAATGCCAGTCACACTCTAGCTAGCTAA
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
DA1-like

Protein Analysis

359

Amino Acids

41.01

Weight (kDa)

5.52

Isoelectric Point (pI)

38.06

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DA1-like PF12315 260 - 344 1.1e-17 Protein DA1
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: OG0016790)

Species Orthologous Gene IDs
fragaria_vesca FvH4_3g21570
prunus_persica Prupe.8G103200_v2.0.a1
rosa_chinensis RchiOBHm_Chr5g0037021
rosa_laevigata RLG00000024635 RLG00000033744
rosa_multiflora Rmu_co8219504.1_g000001 Rmu_sc0008296.1_g000003 Rmu_ssc0000062.1_g000041
rosa_roxburghii Rroxscaffold_1G00043920
rosa_samantha Rh5AG251900 Rh5BG253500 Rh5CG286200 Rh5DG262100
rosa_wichuraiana Rw5G023210

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 650
AccB1I GGYRCC 1 cut(s) 743
AccI GTMKAC 1 cut(s) 663
AccIII TCCGGA 2 cut(s) 637, 1047
AciI CCGC 3 cut(s) 162, 555, 870
AclWI GGATC 2 cut(s) 144, 586
AcoI YGGCCR 1 cut(s) 961
AcsI RAATTY 1 cut(s) 608
AfaI GTAC 5 cut(s) 178, 182, 343, 619, 915
AfeI AGCGCT 1 cut(s) 23
AgsI TTSAA 4 cut(s) 66, 312, 983, 1010
AhlI ACTAGT 1 cut(s) 878
AjnI CCWGG 1 cut(s) 627
AluBI AGCT 8 cut(s) 229, 241, 363, 395, 793, 1044, 1073, 1077
AluI AGCT 8 cut(s) 229, 241, 363, 395, 793, 1044, 1073, 1077
Alw21I GWGCWC 1 cut(s) 397
AlwI GGATC 2 cut(s) 144, 586
AlwNI CAGNNNCTG 1 cut(s) 901
Aor13HI TCCGGA 2 cut(s) 637, 1047
Aor51HI AGCGCT 1 cut(s) 23
AoxI GGCC 2 cut(s) 961, 1003
ApeKI GCWGC 2 cut(s) 405, 474
ApoI RAATTY 1 cut(s) 608
ArsI GACNNNNNNTTYG 2 cut(s) 418, 450
AspLEI GCGC 1 cut(s) 24
AspS9I GGNCC 1 cut(s) 631
AsuHPI GGTGA 2 cut(s) 530, 742
AsuNHI GCTAGC 1 cut(s) 1073
AvaII GGWCC 1 cut(s) 631
BaeGI GKGCMC 1 cut(s) 746
BalI TGGCCA 1 cut(s) 963
BanI GGYRCC 1 cut(s) 743
BanII GRGCYC 1 cut(s) 397
BbsI GAAGAC 1 cut(s) 646
Bbv12I GWGCWC 1 cut(s) 397
BbvI GCAGC 2 cut(s) 392, 461
BccI CCATC 4 cut(s) 383, 515, 670, 755
BciT130I CCWGG 1 cut(s) 629
BciVI GTATCC 1 cut(s) 184
BclI TGATCA 1 cut(s) 1021
BcuI ACTAGT 1 cut(s) 878
BfaI CTAG 6 cut(s) 122, 446, 879, 1035, 1070, 1074
BfoI RGCGCY 1 cut(s) 25
BfuI GTATCC 1 cut(s) 184
BisI GCNGC 2 cut(s) 406, 475
BlsI GCNGC 2 cut(s) 407, 476
Bme1390I CCNGG 1 cut(s) 629
Bme18I GGWCC 1 cut(s) 631
BmgT120I GGNCC 1 cut(s) 631
BmiI GGNNCC 1 cut(s) 745
BmrFI CCNGG 1 cut(s) 629
BmsI GCATC 1 cut(s) 376
BmtI GCTAGC 1 cut(s) 1077
BpiI GAAGAC 1 cut(s) 646
BpuEI CTTGAG 2 cut(s) 10, 69
Bsa29I ATCGAT 1 cut(s) 139
BsaAI YACGTR 1 cut(s) 180
BsaJI CCNNGG 1 cut(s) 964
BsaWI WCCGGW 3 cut(s) 397, 637, 1047
BsaXI ACNNNNNCTCC 4 cut(s) 109, 139, 384, 414
Bse118I RCCGGY 1 cut(s) 752
Bse1I ACTGG 2 cut(s) 786, 1059
BseAI TCCGGA 2 cut(s) 637, 1047
BseBI CCWGG 1 cut(s) 629
BseCI ATCGAT 1 cut(s) 139
BseDI CCNNGG 1 cut(s) 964
BseGI GGATG 2 cut(s) 370, 866
BseMII CTCAG 2 cut(s) 893, 908
BseNI ACTGG 2 cut(s) 786, 1059
BseSI GKGCMC 1 cut(s) 746
BseXI GCAGC 2 cut(s) 392, 461
BshFI GGCC 2 cut(s) 963, 1005
BshNI GGYRCC 1 cut(s) 743
BshVI ATCGAT 1 cut(s) 139
BsiHKAI GWGCWC 1 cut(s) 397
BsiSI CCGG 4 cut(s) 398, 638, 753, 1048
BslFI GGGAC 1 cut(s) 420
BsmFI GGGAC 1 cut(s) 420
BsmI GAATGC 1 cut(s) 1060
BsnI GGCC 2 cut(s) 963, 1005
Bsp1286I GDGCHC 2 cut(s) 397, 746
Bsp13I TCCGGA 2 cut(s) 637, 1047
Bsp143I GATC 6 cut(s) 136, 140, 205, 256, 591, 1021
BspACI CCGC 3 cut(s) 162, 555, 870
BspANI GGCC 2 cut(s) 963, 1005
BspCNI CTCAG 2 cut(s) 894, 907
BspDI ATCGAT 1 cut(s) 139
BspEI TCCGGA 2 cut(s) 637, 1047
BspHI TCATGA 1 cut(s) 588
BspLI GGNNCC 1 cut(s) 745
BspOI GCTAGC 1 cut(s) 1077
BspPI GGATC 2 cut(s) 144, 586
BspT107I GGYRCC 1 cut(s) 743
BsrFI RCCGGY 1 cut(s) 752
BsrI ACTGG 2 cut(s) 786, 1059
BssAI RCCGGY 1 cut(s) 752
BssECI CCNNGG 1 cut(s) 964
BssMI GATC 6 cut(s) 136, 140, 205, 256, 591, 1021
BssT1I CCWWGG 1 cut(s) 964
Bst2UI CCWGG 1 cut(s) 629
Bst4CI ACNGT 1 cut(s) 848
BstBAI YACGTR 1 cut(s) 180
BstC8I GCNNGC 5 cut(s) 231, 365, 695, 891, 1075
BstDEI CTNAG 2 cut(s) 894, 902
BstF5I GGATG 2 cut(s) 370, 866
BstH2I RGCGCY 1 cut(s) 25
BstHHI GCGC 1 cut(s) 24
BstKTI GATC 6 cut(s) 139, 143, 208, 259, 594, 1024
BstMBI GATC 6 cut(s) 136, 140, 205, 256, 591, 1021
BstMWI GCNNNNNNNGC 1 cut(s) 474
BstNI CCWGG 1 cut(s) 629
BstSCI CCNGG 1 cut(s) 627
BstSLI GKGCMC 1 cut(s) 746
BstSNI TACGTA 1 cut(s) 180
BstV1I GCAGC 2 cut(s) 392, 461
BstV2I GAAGAC 1 cut(s) 646
Bsu15I ATCGAT 1 cut(s) 139
BsuI GTATCC 1 cut(s) 184
BsuRI GGCC 2 cut(s) 963, 1005
BsuTUI ATCGAT 1 cut(s) 139
BtgZI GCGATG 1 cut(s) 348
BtsCI GGATG 2 cut(s) 370, 866
BtsIMutI CAGTG 1 cut(s) 853
Cac8I GCNNGC 5 cut(s) 231, 365, 695, 891, 1075
CaiI CAGNNNCTG 1 cut(s) 901
CciI TCATGA 1 cut(s) 588
CfoI GCGC 1 cut(s) 24
Cfr10I RCCGGY 1 cut(s) 752
Cfr13I GGNCC 1 cut(s) 631
ClaI ATCGAT 1 cut(s) 139
Csp6I GTAC 5 cut(s) 177, 181, 342, 618, 914
CviAII CATG 5 cut(s) 284, 478, 589, 944, 1025
CviQI GTAC 5 cut(s) 177, 181, 342, 618, 914
DdeI CTNAG 2 cut(s) 894, 902
DpnI GATC 6 cut(s) 138, 142, 207, 258, 593, 1023
DpnII GATC 6 cut(s) 136, 140, 205, 256, 591, 1021
DrdI GACNNNNNNGTC 1 cut(s) 650
DseDI GACNNNNNNGTC 1 cut(s) 650
EaeI YGGCCR 1 cut(s) 961
Ecl136II GAGCTC 1 cut(s) 395
Eco105I TACGTA 1 cut(s) 180
Eco130I CCWWGG 1 cut(s) 964
Eco24I GRGCYC 1 cut(s) 397
Eco32I GATATC 2 cut(s) 214, 568
Eco47I GGWCC 1 cut(s) 631
Eco47III AGCGCT 1 cut(s) 23
Eco53kI GAGCTC 1 cut(s) 395
EcoICRI GAGCTC 1 cut(s) 395
EcoRII CCWGG 1 cut(s) 627
EcoRV GATATC 2 cut(s) 214, 568
EcoT14I CCWWGG 1 cut(s) 964
EcoT38I GRGCYC 1 cut(s) 397
ErhI CCWWGG 1 cut(s) 964
FaeI CATG 5 cut(s) 287, 481, 592, 947, 1028
FaqI GGGAC 1 cut(s) 420
FatI CATG 5 cut(s) 283, 477, 588, 943, 1024
FbaI TGATCA 1 cut(s) 1021
FblI GTMKAC 1 cut(s) 663
Fnu4HI GCNGC 2 cut(s) 406, 475
FokI GGATG 2 cut(s) 357, 853
FriOI GRGCYC 1 cut(s) 397
Fsp4HI GCNGC 2 cut(s) 406, 475
FspBI CTAG 6 cut(s) 122, 446, 879, 1035, 1070, 1074
GlaI GCGC 1 cut(s) 23
GluI GCNGC 2 cut(s) 406, 475
HaeII RGCGCY 1 cut(s) 25
HaeIII GGCC 2 cut(s) 963, 1005
HapII CCGG 4 cut(s) 398, 638, 753, 1048
HhaI GCGC 1 cut(s) 24
Hin1II CATG 5 cut(s) 287, 481, 592, 947, 1028
Hin6I GCGC 1 cut(s) 22
HinP1I GCGC 1 cut(s) 22
HincII GTYRAC 2 cut(s) 59, 664
HindII GTYRAC 2 cut(s) 59, 664
HindIII AAGCTT 1 cut(s) 1042
HinfI GANTC 1 cut(s) 771
HpaII CCGG 4 cut(s) 398, 638, 753, 1048
HphI GGTGA 2 cut(s) 530, 742
Hpy166II GTNNAC 5 cut(s) 59, 581, 620, 664, 844
Hpy188I TCNGA 6 cut(s) 129, 256, 572, 770, 903, 952
Hpy8I GTNNAC 5 cut(s) 59, 581, 620, 664, 844
Hpy99I CGWCG 3 cut(s) 221, 566, 647
HpyAV CCTTC 3 cut(s) 72, 644, 794
HpyCH4III ACNGT 1 cut(s) 848
HpyCH4IV ACGT 3 cut(s) 45, 179, 645
HpyCH4V TGCA 5 cut(s) 287, 367, 477, 693, 995
HpyF10VI GCNNNNNNNGC 1 cut(s) 474
HpyF3I CTNAG 2 cut(s) 894, 902
HpySE526I ACGT 3 cut(s) 45, 179, 645
Hsp92II CATG 5 cut(s) 287, 481, 592, 947, 1028
HspAI GCGC 1 cut(s) 22
Kpn2I TCCGGA 2 cut(s) 637, 1047
Ksp22I TGATCA 1 cut(s) 1021
Kzo9I GATC 6 cut(s) 136, 140, 205, 256, 591, 1021
LmnI GCTCC 2 cut(s) 392, 400
Lsp1109I GCAGC 2 cut(s) 392, 461
LweI GCATC 1 cut(s) 376
MaeI CTAG 6 cut(s) 122, 446, 879, 1035, 1070, 1074
MaeII ACGT 3 cut(s) 45, 179, 645
MaeIII GTNAC 4 cut(s) 499, 602, 757, 1061
MalI GATC 6 cut(s) 138, 142, 207, 258, 593, 1023
MboI GATC 6 cut(s) 136, 140, 205, 256, 591, 1021
MboII GAAGA 5 cut(s) 215, 300, 646, 809, 1063
MfeI CAATTG 1 cut(s) 1017
MhlI GDGCHC 2 cut(s) 397, 746
MlsI TGGCCA 1 cut(s) 963
MluCI AATT 8 cut(s) 4, 243, 351, 429, 608, 852, 908, 1017
MluNI TGGCCA 1 cut(s) 963
MmeI TCCRAC 4 cut(s) 595, 708, 803, 813
Mox20I TGGCCA 1 cut(s) 963
MroI TCCGGA 2 cut(s) 637, 1047
MscI TGGCCA 1 cut(s) 963
MseI TTAA 2 cut(s) 485, 687
MslI CAYNNNNRTG 2 cut(s) 264, 447
Msp20I TGGCCA 1 cut(s) 963
MspI CCGG 4 cut(s) 398, 638, 753, 1048
MspR9I CCNGG 1 cut(s) 629
MunI CAATTG 1 cut(s) 1017
Mva1269I GAATGC 1 cut(s) 1060
MvaI CCWGG 1 cut(s) 629
MwoI GCNNNNNNNGC 1 cut(s) 474
NdeII GATC 6 cut(s) 136, 140, 205, 256, 591, 1021
NheI GCTAGC 1 cut(s) 1073
NlaIII CATG 5 cut(s) 287, 481, 592, 947, 1028
NlaIV GGNNCC 1 cut(s) 745
NmeAIII GCCGAG 1 cut(s) 563
NmuCI GTSAC 2 cut(s) 602, 1061
PagI TCATGA 1 cut(s) 588
PcsI WCGNNNNNNNCGW 1 cut(s) 145
PctI GAATGC 1 cut(s) 1060
PfeI GAWTC 1 cut(s) 771
PkrI GCNGC 2 cut(s) 407, 476
Ppu21I YACGTR 1 cut(s) 180
Psp124BI GAGCTC 1 cut(s) 397
Psp6I CCWGG 1 cut(s) 627
PspGI CCWGG 1 cut(s) 627
PspN4I GGNNCC 1 cut(s) 745
PspPI GGNCC 1 cut(s) 631
PstNI CAGNNNCTG 1 cut(s) 901
RsaI GTAC 5 cut(s) 178, 182, 343, 619, 915
RsaNI GTAC 5 cut(s) 177, 181, 342, 618, 914
RseI CAYNNNNRTG 2 cut(s) 264, 447
SacI GAGCTC 1 cut(s) 397
SalI GTCGAC 1 cut(s) 662
SaqAI TTAA 2 cut(s) 485, 687
SatI GCNGC 2 cut(s) 406, 475
Sau3AI GATC 6 cut(s) 136, 140, 205, 256, 591, 1021
Sau96I GGNCC 1 cut(s) 631
ScrFI CCNGG 1 cut(s) 629
SduI GDGCHC 2 cut(s) 397, 746
SfaNI GCATC 1 cut(s) 376
SgrAI CRCCGGYG 1 cut(s) 752
SinI GGWCC 1 cut(s) 631
SmiMI CAYNNNNRTG 2 cut(s) 264, 447
SmlI CTYRAG 2 cut(s) 25, 84
SmoI CTYRAG 2 cut(s) 25, 84
SnaBI TACGTA 1 cut(s) 180
SpeI ACTAGT 1 cut(s) 878
Sse9I AATT 8 cut(s) 4, 243, 351, 429, 608, 852, 908, 1017
SsiI CCGC 3 cut(s) 162, 555, 870
SspMI CTAG 6 cut(s) 122, 446, 879, 1035, 1070, 1074
SstI GAGCTC 1 cut(s) 397
StyD4I CCNGG 1 cut(s) 627
StyI CCWWGG 1 cut(s) 964
TaaI ACNGT 1 cut(s) 848
TaiI ACGT 3 cut(s) 48, 182, 648
TaqI TCGA 5 cut(s) 139, 216, 357, 564, 663
TasI AATT 8 cut(s) 4, 243, 351, 429, 608, 852, 908, 1017
TatI WGTACW 2 cut(s) 341, 913
TfiI GAWTC 1 cut(s) 771
Tru1I TTAA 2 cut(s) 485, 687
Tru9I TTAA 2 cut(s) 485, 687
TscAI CASTG 1 cut(s) 853
TseFI GTSAC 2 cut(s) 602, 1061
TseI GCWGC 2 cut(s) 405, 474
Tsp45I GTSAC 2 cut(s) 602, 1061
TspDTI ATGAA 4 cut(s) 17, 216, 282, 969
TspGWI ACGGA 2 cut(s) 238, 605
TspRI CASTG 1 cut(s) 853
VpaK11BI GGWCC 1 cut(s) 631
XapI RAATTY 1 cut(s) 608
XbaI TCTAGA 1 cut(s) 445
XmiI GTMKAC 1 cut(s) 663
XspI CTAG 6 cut(s) 122, 446, 879, 1035, 1070, 1074
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.