Rh3BG270300

isoform X1

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr3B
OG0016410
Physical Location & Seq
Reverse (-)
26338557 .. 26344863
6307 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh3BG270300.1

Sequence Viewer

Length: 1227 bp
ATGAAGTTGCAGTCTTTGAATTCGGGATACGAAATGCGAACTCTCATTGCCAAACCCAATGGTTCCTCAATGCGCAAAACCCCAACAACTATCCAATCTTGCTCTCCAACTCAGGACCTTCGAGGCCAATCCGTCGCCATTATCGGATTGGGAAAATCTGGTAGAGCTGCGGCGAGGCTTGCTCTTGCCAGAGGTGCTGCTTCAGTTTTAGCATTTGACCACAACCCCACTTTGGGCCTCCTAGAGAAAGATCCCTTGTTTGAGGAGCATGGTGGTGATAATGGTGCATTGAGAACAATTTTGGGCCAATTTGATGGAGAGTTACTTAACAATGTGGACAGGGTGGTGGTGTCCCCTGGGGTCCCGCTACGAAAATATGGCCTTTCGTCTTTGTTGCAATCGGGAAAACAGGTGATGTCTGAGTTGGATTTCGCTGCCGAAATTCTCCCAAAAAGTATCAAGATCTCAGCAGTGACAGGGACTAATGGAAAATCAACTTTTGTCACTTTTGCTGGACAGATGCTTAGTCATTTGGAGGCTGCTTTCCAGTGCTTACAGAACCCCCTTCTAAAACCAAAGTTTAAGGTTGCTGTGGTGGAGGTTAGCAGTTACCAAATGGAAATTCCCAACAAGTACTTCTGCCCTTCTGTAGCTGTAGTGTTAAACCTTACACCTGATCATTTAGAAAGGCACAGGACAATGAGAGACTATGCAGTGACTAAATGCCGGTTATTTCATCACATGAGTGATGCCAAGCTTGGGCTTCTTTGTTTTGGGAACCAGTACTTAAATGAAGCAGTTATGGGAAGCTTGAATGAAATTAATCTTGCTTGGATAGGAGCCACTCCAGGTGTAAGAATTGATATGGATGCAAAAATTGCAAGCTTCGAAGTGCCTGCCTTGGGAATCAATTCTCAACTACAATTGGGCGCAATGAACATGATTGGAACACAGAACTATCACAATGCTGCAGTTGCTGCTCTATCTGTTGTTGGACTGGATGTAGGACTTGATGTTGAAGCCATTGGTCCATGTATAGAAGGGGTAAGGCCACCACCTCATCGAATGCAAATTGTATGCAAGGATATCCACAGGAGGCAAAAGTCTGTGATTCTACTTGGTGGCCTTGCGAAGGTTGTGGATGGACATGTGAGGATAGTACATATCCATGACAAATTGCAAGTAGTTATGTACAACAGTACAAATCAAGAAAATGCTGCGGCATAG
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
2-Hacid_dh_C Mur_ligase_C Mur_ligase_M

Protein Analysis

408

Amino Acids

44.11

Weight (kDa)

8.87

Isoelectric Point (pI)

32.82

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
MurD-like_N PF21799 44 - 139 1.3e-08 Mur ligase MurD-like, N-terminal domain
Mur_ligase_M PF08245 158 - 328 2.7e-16 Mur ligase middle domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0016410)

Species Orthologous Gene IDs
malus_domestica MD12G1063100.v1.1
prunus_persica Prupe.7G070400_v2.0.a1
pyrus_communis pycom12g05560
rosa_chinensis RchiOBHm_Chr3g0480711 RchiOBHm_Chr3g0480721
rosa_multiflora Rmu_sc0001135.1_g000007 Rmu_sc0003902.1_g000026
rosa_roxburghii Rroxscaffold_6G00401140
rosa_rugosa Rorug03G0185000 Rorug03G0185100
rosa_samantha Rh3AG237200 Rh3BG270300 Rh3CG266500 Rh3DG262700
rosa_wichuraiana Rw3G021240

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc16I TGCGCA 1 cut(s) 74
AciI CCGC 3 cut(s) 170, 365, 1220
AclWI GGATC 1 cut(s) 245
AcsI RAATTY 3 cut(s) 19, 441, 621
AcuI CTGAAG 1 cut(s) 186
AfaI GTAC 5 cut(s) 635, 785, 1161, 1193, 1201
AfiI CCNNNNNNNGG 5 cut(s) 232, 233, 759, 902, 1132
AflIII ACRYGT 1 cut(s) 1147
AgsI TTSAA 3 cut(s) 19, 814, 1019
AjnI CCWGG 2 cut(s) 355, 847
AjuI GAANNNNNNNTTGG 4 cut(s) 606, 620, 638, 652
AleI CACNNNNGTG 1 cut(s) 744
AluBI AGCT 5 cut(s) 167, 653, 757, 810, 885
AluI AGCT 5 cut(s) 167, 653, 757, 810, 885
Alw26I GTCTC 1 cut(s) 699
AlwI GGATC 1 cut(s) 245
AlwNI CAGNNNCTG 1 cut(s) 977
AoxI GGCC 6 cut(s) 124, 235, 304, 379, 1049, 1123
ApeKI GCWGC 7 cut(s) 167, 197, 434, 539, 968, 977, 1217
ApoI RAATTY 3 cut(s) 19, 441, 621
AseI ATTAAT 1 cut(s) 822
Asp700I GAANNNNTTC 1 cut(s) 910
AspLEI GCGC 2 cut(s) 75, 932
AspS9I GGNCC 5 cut(s) 115, 235, 304, 361, 1028
AsuHPI GGTGA 2 cut(s) 287, 424
AsuII TTCGAA 1 cut(s) 888
AvaII GGWCC 3 cut(s) 115, 361, 1028
BbvI GCAGC 7 cut(s) 154, 184, 421, 526, 955, 964, 1204
BccI CCATC 2 cut(s) 308, 1136
BcgI CGANNNNNNTGC 2 cut(s) 878, 912
BciT130I CCWGG 2 cut(s) 357, 849
BciVI GTATCC 1 cut(s) 20
BclI TGATCA 1 cut(s) 676
BcoDI GTCTC 1 cut(s) 699
BfaI CTAG 1 cut(s) 242
BfmI CTRYAG 3 cut(s) 648, 654, 969
BfuI GTATCC 1 cut(s) 20
BglII AGATCT 1 cut(s) 462
BisI GCNGC 9 cut(s) 168, 171, 198, 435, 540, 969, 978, 1218, 1221
BlsI GCNGC 9 cut(s) 169, 172, 199, 436, 541, 970, 979, 1219, 1222
BmcAI AGTACT 2 cut(s) 635, 785
Bme1390I CCNGG 2 cut(s) 357, 849
Bme18I GGWCC 3 cut(s) 115, 361, 1028
BmgT120I GGNCC 5 cut(s) 115, 235, 304, 361, 1028
BmiI GGNNCC 5 cut(s) 64, 362, 363, 779, 841
BmrFI CCNGG 2 cut(s) 357, 849
BmsI GCATC 3 cut(s) 510, 739, 859
BplI GAGNNNNNCTC 2 cut(s) 166, 198
BpmI CTGGAG 1 cut(s) 831
Bpu14I TTCGAA 1 cut(s) 888
BsaJI CCNNGG 3 cut(s) 355, 356, 900
Bsc4I CCNNNNNNNGG 5 cut(s) 232, 233, 759, 902, 1132
Bse118I RCCGGY 1 cut(s) 726
Bse1I ACTGG 3 cut(s) 547, 781, 1002
Bse3DI GCAATG 2 cut(s) 45, 939
BseBI CCWGG 2 cut(s) 357, 849
BseDI CCNNGG 3 cut(s) 355, 356, 900
BseGI GGATG 3 cut(s) 874, 1006, 1147
BseLI CCNNNNNNNGG 5 cut(s) 232, 233, 759, 902, 1132
BseMI GCAATG 2 cut(s) 45, 939
BseMII CTCAG 3 cut(s) 125, 411, 480
BseNI ACTGG 3 cut(s) 547, 781, 1002
BseRI GAGGAG 1 cut(s) 278
BseXI GCAGC 7 cut(s) 154, 184, 421, 526, 955, 964, 1204
BshFI GGCC 6 cut(s) 126, 237, 306, 381, 1051, 1125
BsiSI CCGG 1 cut(s) 727
BslFI GGGAC 3 cut(s) 337, 347, 493
BslI CCNNNNNNNGG 5 cut(s) 232, 233, 759, 902, 1132
BsmAI GTCTC 1 cut(s) 699
BsmFI GGGAC 3 cut(s) 337, 347, 493
BsmI GAATGC 1 cut(s) 1071
BsnI GGCC 6 cut(s) 126, 237, 306, 381, 1051, 1125
Bsp119I TTCGAA 1 cut(s) 888
Bsp1407I TGTACA 1 cut(s) 1191
Bsp143I GATC 3 cut(s) 250, 462, 676
BspACI CCGC 3 cut(s) 170, 365, 1220
BspANI GGCC 6 cut(s) 126, 237, 306, 381, 1051, 1125
BspCNI CTCAG 3 cut(s) 124, 412, 479
BspLI GGNNCC 5 cut(s) 64, 362, 363, 779, 841
BspMAI CTGCAG 1 cut(s) 973
BspPI GGATC 1 cut(s) 245
BspT104I TTCGAA 1 cut(s) 888
BsrDI GCAATG 2 cut(s) 45, 939
BsrFI RCCGGY 1 cut(s) 726
BsrGI TGTACA 1 cut(s) 1191
BsrI ACTGG 3 cut(s) 547, 781, 1002
BssAI RCCGGY 1 cut(s) 726
BssECI CCNNGG 3 cut(s) 355, 356, 900
BssMI GATC 3 cut(s) 250, 462, 676
BssT1I CCWWGG 1 cut(s) 900
Bst2UI CCWGG 2 cut(s) 357, 849
Bst4CI ACNGT 1 cut(s) 1199
BstAPI GCANNNNNTGC 2 cut(s) 878, 977
BstAUI TGTACA 1 cut(s) 1191
BstBI TTCGAA 1 cut(s) 888
BstC8I GCNNGC 3 cut(s) 180, 883, 897
BstDEI CTNAG 4 cut(s) 111, 420, 466, 524
BstENI CCTNNNNNAGG 1 cut(s) 1130
BstF5I GGATG 3 cut(s) 874, 1006, 1147
BstHHI GCGC 2 cut(s) 75, 932
BstKTI GATC 3 cut(s) 253, 465, 679
BstMAI GTCTC 1 cut(s) 699
BstMBI GATC 3 cut(s) 250, 462, 676
BstMWI GCNNNNNNNGC 5 cut(s) 179, 194, 878, 974, 977
BstNI CCWGG 2 cut(s) 357, 849
BstNSI RCATGY 1 cut(s) 1151
BstSCI CCNGG 2 cut(s) 355, 847
BstSFI CTRYAG 3 cut(s) 648, 654, 969
BstV1I GCAGC 7 cut(s) 154, 184, 421, 526, 955, 964, 1204
BstX2I RGATCY 2 cut(s) 250, 462
BstXI CCANNNNNNTGG 1 cut(s) 314
BstYI RGATCY 2 cut(s) 250, 462
BsuI GTATCC 1 cut(s) 20
BsuRI GGCC 6 cut(s) 126, 237, 306, 381, 1051, 1125
BtsCI GGATG 3 cut(s) 874, 1006, 1147
BtsI GCAGTG 2 cut(s) 477, 720
BtsIMutI CAGTG 3 cut(s) 477, 554, 720
Cac8I GCNNGC 3 cut(s) 180, 883, 897
CaiI CAGNNNCTG 1 cut(s) 977
CfoI GCGC 2 cut(s) 75, 932
Cfr10I RCCGGY 1 cut(s) 726
Cfr13I GGNCC 5 cut(s) 115, 235, 304, 361, 1028
Csp6I GTAC 5 cut(s) 634, 784, 1160, 1192, 1200
CviAII CATG 6 cut(s) 269, 742, 940, 1032, 1148, 1169
CviQI GTAC 5 cut(s) 634, 784, 1160, 1192, 1200
DdeI CTNAG 4 cut(s) 111, 420, 466, 524
DpnI GATC 3 cut(s) 252, 464, 678
DpnII GATC 3 cut(s) 250, 462, 676
Eco130I CCWWGG 1 cut(s) 900
Eco32I GATATC 1 cut(s) 1087
Eco47I GGWCC 3 cut(s) 115, 361, 1028
Eco57I CTGAAG 1 cut(s) 186
EcoNI CCTNNNNNAGG 1 cut(s) 1130
EcoO109I RGGNCCY 2 cut(s) 115, 361
EcoRI GAATTC 1 cut(s) 19
EcoRII CCWGG 2 cut(s) 355, 847
EcoRV GATATC 1 cut(s) 1087
EcoT14I CCWWGG 1 cut(s) 900
ErhI CCWWGG 1 cut(s) 900
FaeI CATG 6 cut(s) 272, 745, 943, 1035, 1151, 1172
FaqI GGGAC 3 cut(s) 337, 347, 493
FatI CATG 6 cut(s) 268, 741, 939, 1031, 1147, 1168
FauI CCCGC 1 cut(s) 372
FbaI TGATCA 1 cut(s) 676
Fnu4HI GCNGC 9 cut(s) 168, 171, 198, 435, 540, 969, 978, 1218, 1221
FokI GGATG 3 cut(s) 881, 1013, 1154
Fsp4HI GCNGC 9 cut(s) 168, 171, 198, 435, 540, 969, 978, 1218, 1221
FspBI CTAG 1 cut(s) 242
FspI TGCGCA 1 cut(s) 74
GlaI GCGC 2 cut(s) 74, 931
GluI GCNGC 9 cut(s) 168, 171, 198, 435, 540, 969, 978, 1218, 1221
GsuI CTGGAG 1 cut(s) 831
HaeIII GGCC 6 cut(s) 126, 237, 306, 381, 1051, 1125
HapII CCGG 1 cut(s) 727
HhaI GCGC 2 cut(s) 75, 932
Hin1II CATG 6 cut(s) 272, 745, 943, 1035, 1151, 1172
Hin6I GCGC 2 cut(s) 73, 930
HinP1I GCGC 2 cut(s) 73, 930
HindIII AAGCTT 3 cut(s) 755, 808, 883
HinfI GANTC 2 cut(s) 906, 1111
HpaII CCGG 1 cut(s) 727
HphI GGTGA 2 cut(s) 287, 424
Hpy166II GTNNAC 1 cut(s) 337
Hpy188I TCNGA 2 cut(s) 146, 421
Hpy188III TCNNGA 5 cut(s) 24, 113, 402, 460, 1208
Hpy8I GTNNAC 1 cut(s) 337
Hpy99I CGWCG 1 cut(s) 137
HpyAV CCTTC 5 cut(s) 128, 575, 654, 1034, 1126
HpyCH4III ACNGT 1 cut(s) 1199
HpyF10VI GCNNNNNNNGC 5 cut(s) 179, 194, 878, 974, 977
HpyF3I CTNAG 4 cut(s) 111, 420, 466, 524
Hsp92II CATG 6 cut(s) 272, 745, 943, 1035, 1151, 1172
HspAI GCGC 2 cut(s) 73, 930
KflI GGGWCCC 1 cut(s) 361
Ksp22I TGATCA 1 cut(s) 676
Kzo9I GATC 3 cut(s) 250, 462, 676
LmnI GCTCC 2 cut(s) 265, 839
Lsp1109I GCAGC 7 cut(s) 154, 184, 421, 526, 955, 964, 1204
LweI GCATC 3 cut(s) 510, 739, 859
MaeI CTAG 1 cut(s) 242
MaeIII GTNAC 5 cut(s) 321, 472, 502, 608, 715
MalI GATC 3 cut(s) 252, 464, 678
MboI GATC 3 cut(s) 250, 462, 676
MfeI CAATTG 1 cut(s) 923
MflI RGATCY 2 cut(s) 250, 462
MmeI TCCRAC 3 cut(s) 131, 405, 973
MroXI GAANNNNTTC 1 cut(s) 910
MseI TTAA 5 cut(s) 327, 582, 662, 788, 822
MslI CAYNNNNRTG 3 cut(s) 273, 744, 1167
MspI CCGG 1 cut(s) 727
MspR9I CCNGG 2 cut(s) 357, 849
MunI CAATTG 1 cut(s) 923
Mva1269I GAATGC 1 cut(s) 1071
MvaI CCWGG 2 cut(s) 357, 849
MwoI GCNNNNNNNGC 5 cut(s) 179, 194, 878, 974, 977
NdeII GATC 3 cut(s) 250, 462, 676
NlaIII CATG 6 cut(s) 272, 745, 943, 1035, 1151, 1172
NlaIV GGNNCC 5 cut(s) 64, 362, 363, 779, 841
NmuCI GTSAC 3 cut(s) 472, 502, 715
NsbI TGCGCA 1 cut(s) 74
NspI RCATGY 1 cut(s) 1151
NspV TTCGAA 1 cut(s) 888
OliI CACNNNNGTG 1 cut(s) 744
PasI CCCWGGG 1 cut(s) 356
PciI ACATGT 1 cut(s) 1147
PctI GAATGC 1 cut(s) 1071
PdmI GAANNNNTTC 1 cut(s) 910
PfeI GAWTC 2 cut(s) 906, 1111
PkrI GCNGC 9 cut(s) 169, 172, 199, 436, 541, 970, 979, 1219, 1222
PpuMI RGGWCCY 2 cut(s) 115, 361
PscI ACATGT 1 cut(s) 1147
PshBI ATTAAT 1 cut(s) 822
Psp5II RGGWCCY 2 cut(s) 115, 361
Psp6I CCWGG 2 cut(s) 355, 847
PspGI CCWGG 2 cut(s) 355, 847
PspN4I GGNNCC 5 cut(s) 64, 362, 363, 779, 841
PspPI GGNCC 5 cut(s) 115, 235, 304, 361, 1028
PspPPI RGGWCCY 2 cut(s) 115, 361
PstI CTGCAG 1 cut(s) 973
PstNI CAGNNNCTG 1 cut(s) 977
PsuI RGATCY 2 cut(s) 250, 462
RsaI GTAC 5 cut(s) 635, 785, 1161, 1193, 1201
RsaNI GTAC 5 cut(s) 634, 784, 1160, 1192, 1200
RseI CAYNNNNRTG 3 cut(s) 273, 744, 1167
SaqAI TTAA 5 cut(s) 327, 582, 662, 788, 822
SatI GCNGC 9 cut(s) 168, 171, 198, 435, 540, 969, 978, 1218, 1221
Sau3AI GATC 3 cut(s) 250, 462, 676
Sau96I GGNCC 5 cut(s) 115, 235, 304, 361, 1028
ScaI AGTACT 2 cut(s) 635, 785
ScrFI CCNGG 2 cut(s) 357, 849
SfaNI GCATC 3 cut(s) 510, 739, 859
SfcI CTRYAG 3 cut(s) 648, 654, 969
SfuI TTCGAA 1 cut(s) 888
SinI GGWCC 3 cut(s) 115, 361, 1028
SmiMI CAYNNNNRTG 3 cut(s) 273, 744, 1167
SsiI CCGC 3 cut(s) 170, 365, 1220
SspMI CTAG 1 cut(s) 242
StyD4I CCNGG 2 cut(s) 355, 847
StyI CCWWGG 1 cut(s) 900
TaaI ACNGT 1 cut(s) 1199
TaqI TCGA 3 cut(s) 121, 888, 1063
TatI WGTACW 5 cut(s) 633, 783, 1159, 1191, 1199
TauI GCSGC 2 cut(s) 173, 1223
TfiI GAWTC 2 cut(s) 906, 1111
Tru1I TTAA 5 cut(s) 327, 582, 662, 788, 822
Tru9I TTAA 5 cut(s) 327, 582, 662, 788, 822
TscAI CASTG 3 cut(s) 477, 554, 720
TseFI GTSAC 3 cut(s) 472, 502, 715
TseI GCWGC 7 cut(s) 167, 197, 434, 539, 968, 977, 1217
Tsp45I GTSAC 3 cut(s) 472, 502, 715
TspDTI ATGAA 5 cut(s) 17, 725, 807, 831, 950
TspGWI ACGGA 1 cut(s) 121
TspRI CASTG 3 cut(s) 477, 554, 720
VpaK11BI GGWCC 3 cut(s) 115, 361, 1028
VspI ATTAAT 1 cut(s) 822
XagI CCTNNNNNAGG 1 cut(s) 1130
XapI RAATTY 3 cut(s) 19, 441, 621
XceI RCATGY 1 cut(s) 1151
XcmI CCANNNNNNNNNTGG 1 cut(s) 145
XmnI GAANNNNTTC 1 cut(s) 910
XspI CTAG 1 cut(s) 242
ZrmI AGTACT 2 cut(s) 635, 785
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.