Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000007

Orthogroup ID

OG0002935

Physical Location & Seq

Genomic Coordinates Forward (+)

7921969 .. 7924479

Gene Structure 2511 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_7G00166460.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1287 bp

ATGGTTTCACAAGACTCACCCCCAAACCAAGCCTCAAGTATTCTCCACCATTTCATTGTGTCTGACTCCATGGCAGCTCAAAACCACATGGAAAACCAACACCAGCTTGATGCTGCTTACGCCTCTAATTTTCGAACCAGCACTAGCACATACCCTCAGTCTCTTGGTCAACTCCCCAGCATTCATTCTCTCGAGGAGAGAATGTCTAGATCACTAGACCTTCTTCATGCTCCTCCAACAGTTGCGGCAGAGGGATCGGATCATATGAGCCACACAAGGCTTCTAATGGACCAGCACCAAGCACTCTCACTGTCCCTTGGCTCACAGATGCTTCTTCCTCCTAATTCTCATTCTGCTCATTATGTGACTGATGACTATTCGTTCATGGGGAATGCGCTTGCTTCAACCTCAAGCTCGCTGAATCAGCAGTCTTTGGCAGCAGTCATTGGGAATTCAAGATATCTAAAGCCAGCTCAGTCACTGTTAGAAGAGATAGTTAGTGTTGGCGGAAAGGCCGTCGATATCAGCAGTGAAAAACATTTTGGGAAGATGTATGGTGGAGGTAGGAAAGGCTCAATGGGCCTTTCTTCTGAATTGAAAGCAGAGTTGTGCTGCAATGGCCTCATGTCAGCTGACAAACATGAATTTCAATCGAAAATCGCAAACCTCATTACCTTGCTGGAAGAGGTTGAGGACAGATGTGAGAAGTACTACCATCAAATGGAAGAAGTGATGTCATCATTTGAGATGGTAGTGGGTGCAGGAGCAGCAAAGTCTTACACAGCTCTGGCTCTCAAGGCCATGTCCAGGCACTTTGGCAGCTTAAGGGATGCTATAATGTCACATATATATGCAGAAAAGCGAAAGTTGATGCAAGATTTTCCGAAAGTGAGCAGCGGACTAGCGCAACTCAGCGTGTTTGATCGAGAGTGTAGACAGAAGAGAATGTCCCTTCAACAGCTTGGGATTATCCATGGCCAAAGGCAAGCAGCTTGGAGACCAATTAGAGGGCTGCCTGAGACCTCGGTGGCAATTCTCCGCACTTGGCTTTTCGAACACTTTCTTCATCCTTATCCTAATGACTCTGAGAAGCTAATGTTGGCATCACAAACAGGCCTGTCCAAGAACCAAGTTTCAAATTGGTTCATAAATGCACGGGTTCGGCTTTGGAAACCTATGATAGAGGAAATGTACAAAGAAGAATTTGCGGATTCTTCACAAGACTCGAATCCAGTAGCTAATAGTTCCATGACCGGTGAAAGCAACATAGATCACACAGATGATTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003700 GO:0006355 GO:0008150 GO:0009889 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0031323 GO:0031326 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0060255 GO:0065007 GO:0080090 GO:0140110 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Homeobox_KN POX

Protein Analysis

428

Amino Acids

47.59

Weight (kDa)

6.12

Isoelectric Point (pI)

54.3

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
POX	PF07526	148 - 280	6.9e-39	Associated with HOX
Homeobox_KN	PF05920	349 - 388	6.5e-19	Homeobox KN domain
Homeodomain	PF00046	356 - 388	3.6e-07	Homeodomain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0002935)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G75430 AT1G75430
fragaria_vesca	FvH4_2g39270 FvH4_2g39270 FvH4_2g39270
malus_domestica	MD08G1024300.v1.1 MD15G1021900.v1.1
prunus_persica	Prupe.1G373700_v2.0.a1 Prupe.1G373700_v2.0.a1 Prupe.1G373700_v2.0.a1 Prupe.1G373700_v2.0.a1 Prupe.1G373700_v2.0.a1
pyrus_communis	pycom08g01910 pycom15g01820
rosa_chinensis	RchiOBHm_Chr6g0245211 RchiOBHm_Chr6g0301741
rosa_laevigata	RLG00000011226 RLG00000015315 RLG00000021395
rosa_multiflora	Rmu_sc0001288.1_g000006 Rmu_sc0005454.1_g000025
rosa_roxburghii	Rroxscaffold_3G00242160 Rroxscaffold_7G00166460 Rroxscaffold_7G00215350
rosa_rugosa	Rorug05G0512900 Rorug05G0512900 Rorug06G0308600 Rorug06G0308700.1 Rorug06G0308800.1 Rorug06G0308900.1
rosa_samantha	Rh6AG028000 Rh6AG028100 Rh6AG421100 Rh6BG024200 Rh6BG427800 Rh6CG434400 Rh6DG421300
rosa_wichuraiana	Rw6G036450

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	721
AccI	GTMKAC	1 cut(s)	934
AciI	CCGC	5 cut(s)	245, 507, 897, 1039, 1208
AclWI	GGATC	2 cut(s)	262, 267
AcoI	YGGCCR	1 cut(s)	976
AcsI	RAATTY	3 cut(s)	451, 644, 1202
AfaI	GTAC	2 cut(s)	710, 1193
AfiI	CCNNNNNNNGG	3 cut(s)	721, 807, 1007
AflII	CTTAAG	1 cut(s)	823
AgeI	ACCGGT	1 cut(s)	1253
AgsI	TTSAA	6 cut(s)	405, 456, 598, 650, 956, 1137
AjnI	CCWGG	1 cut(s)	806
AjuI	GAANNNNNNNTTGG	4 cut(s)	525, 557, 1082, 1114
Alw26I	GTCTC	3 cut(s)	165, 991, 1013
AlwI	GGATC	2 cut(s)	262, 267
AlwNI	CAGNNNCTG	1 cut(s)	481
Ama87I	CYCGRG	1 cut(s)	191
AoxI	GGCC	6 cut(s)	513, 580, 619, 798, 976, 1114
ApeKI	GCWGC	9 cut(s)	74, 113, 437, 612, 767, 819, 894, 989, 1012
ApoI	RAATTY	3 cut(s)	451, 644, 1202
AsiGI	ACCGGT	1 cut(s)	1253
Asp700I	GAANNNNTTC	1 cut(s)	1059
AspLEI	GCGC	2 cut(s)	397, 907
AspS9I	GGNCC	2 cut(s)	289, 580
AsuHPI	GGTGA	2 cut(s)	9, 1268
AsuII	TTCGAA	2 cut(s)	133, 1053
AvaI	CYCGRG	1 cut(s)	191
AvaII	GGWCC	1 cut(s)	289
BalI	TGGCCA	1 cut(s)	978
BbvI	GCAGC	9 cut(s)	86, 100, 449, 599, 779, 831, 906, 999, 1001
BccI	CCATC	2 cut(s)	723, 742
BceAI	ACGGC	1 cut(s)	500
BcgI	CGANNNNNNTGC	2 cut(s)	237, 271
BciT130I	CCWGG	1 cut(s)	808
BcoDI	GTCTC	3 cut(s)	165, 991, 1013
BfaI	CTAG	4 cut(s)	144, 207, 215, 902
BfrI	CTTAAG	1 cut(s)	823
BmcAI	AGTACT	1 cut(s)	710
Bme1390I	CCNGG	1 cut(s)	808
Bme18I	GGWCC	1 cut(s)	289
BmeT110I	CYCGRG	1 cut(s)	191
BmgT120I	GGNCC	2 cut(s)	289, 580
BmrFI	CCNGG	1 cut(s)	808
BmsI	GCATC	5 cut(s)	100, 318, 820, 861, 1112
Bpu14I	TTCGAA	2 cut(s)	133, 1053
BpuEI	CTTGAG	3 cut(s)	19, 394, 779
BsaI	GGTCTC	2 cut(s)	991, 1013
BsaJI	CCNNGG	4 cut(s)	69, 316, 973, 1023
BsaWI	WCCGGW	1 cut(s)	1253
BsaXI	ACNNNNNCTCC	2 cut(s)	188, 218
Bsc4I	CCNNNNNNNGG	3 cut(s)	721, 807, 1007
Bse118I	RCCGGY	1 cut(s)	1253
Bse1I	ACTGG	1 cut(s)	1232
Bse3DI	GCAATG	1 cut(s)	622
BseBI	CCWGG	1 cut(s)	808
BseDI	CCNNGG	4 cut(s)	69, 316, 973, 1023
BseGI	GGATG	2 cut(s)	835, 1066
BseLI	CCNNNNNNNGG	3 cut(s)	721, 807, 1007
BseMI	GCAATG	1 cut(s)	622
BseMII	CTCAG	5 cut(s)	170, 488, 925, 1008, 1077
BseNI	ACTGG	1 cut(s)	1232
BseRI	GAGGAG	2 cut(s)	209, 222
BseXI	GCAGC	9 cut(s)	86, 100, 449, 599, 779, 831, 906, 999, 1001
BseYI	CCCAGC	1 cut(s)	176
BsgI	GTGCAG	1 cut(s)	780
BshFI	GGCC	6 cut(s)	515, 582, 621, 800, 978, 1116
BshTI	ACCGGT	1 cut(s)	1253
BsiHKCI	CYCGRG	1 cut(s)	191
BsiSI	CCGG	1 cut(s)	1254
BslFI	GGGAC	2 cut(s)	298, 934
BslI	CCNNNNNNNGG	3 cut(s)	721, 807, 1007
BsmAI	GTCTC	3 cut(s)	165, 991, 1013
BsmFI	GGGAC	2 cut(s)	298, 934
BsmI	GAATGC	2 cut(s)	180, 397
BsnI	GGCC	6 cut(s)	515, 582, 621, 800, 978, 1116
Bso31I	GGTCTC	2 cut(s)	991, 1013
BsoBI	CYCGRG	1 cut(s)	191
Bsp119I	TTCGAA	2 cut(s)	133, 1053
Bsp1407I	TGTACA	1 cut(s)	1191
Bsp143I	GATC	5 cut(s)	209, 254, 259, 922, 1270
Bsp19I	CCATGG	2 cut(s)	69, 973
BspACI	CCGC	5 cut(s)	245, 507, 897, 1039, 1208
BspANI	GGCC	6 cut(s)	515, 582, 621, 800, 978, 1116
BspCNI	CTCAG	5 cut(s)	169, 487, 924, 1009, 1078
BspPI	GGATC	2 cut(s)	262, 267
BspT104I	TTCGAA	2 cut(s)	133, 1053
BspTI	CTTAAG	1 cut(s)	823
BspTNI	GGTCTC	2 cut(s)	991, 1013
BsrDI	GCAATG	1 cut(s)	622
BsrFI	RCCGGY	1 cut(s)	1253
BsrGI	TGTACA	1 cut(s)	1191
BsrI	ACTGG	1 cut(s)	1232
BssAI	RCCGGY	1 cut(s)	1253
BssECI	CCNNGG	4 cut(s)	69, 316, 973, 1023
BssMI	GATC	5 cut(s)	209, 254, 259, 922, 1270
BssT1I	CCWWGG	3 cut(s)	69, 316, 973
Bst2UI	CCWGG	1 cut(s)	808
Bst4CI	ACNGT	3 cut(s)	241, 312, 483
Bst6I	CTCTTC	3 cut(s)	483, 678, 935
BstAFI	CTTAAG	1 cut(s)	823
BstAUI	TGTACA	1 cut(s)	1191
BstBI	TTCGAA	2 cut(s)	133, 1053
BstC8I	GCNNGC	4 cut(s)	399, 416, 471, 987
BstDEI	CTNAG	5 cut(s)	156, 474, 911, 1017, 1086
BstDSI	CCRYGG	2 cut(s)	69, 973
BstF5I	GGATG	2 cut(s)	835, 1066
BstHHI	GCGC	2 cut(s)	397, 907
BstKTI	GATC	5 cut(s)	212, 257, 262, 925, 1273
BstMAI	GTCTC	3 cut(s)	165, 991, 1013
BstMBI	GATC	5 cut(s)	209, 254, 259, 922, 1270
BstMWI	GCNNNNNNNGC	6 cut(s)	119, 424, 579, 618, 767, 797
BstNI	CCWGG	1 cut(s)	808
BstSCI	CCNGG	1 cut(s)	806
BstV1I	GCAGC	9 cut(s)	86, 100, 449, 599, 779, 831, 906, 999, 1001
BsuRI	GGCC	6 cut(s)	515, 582, 621, 800, 978, 1116
BtgI	CCRYGG	2 cut(s)	69, 973
BtsCI	GGATG	2 cut(s)	835, 1066
BtsI	GCAGTG	1 cut(s)	535
BtsIMutI	CAGTG	3 cut(s)	308, 479, 535
Cac8I	GCNNGC	4 cut(s)	399, 416, 471, 987
CaiI	CAGNNNCTG	1 cut(s)	481
CfoI	GCGC	2 cut(s)	397, 907
Cfr10I	RCCGGY	1 cut(s)	1253
Cfr13I	GGNCC	2 cut(s)	289, 580
Csp6I	GTAC	2 cut(s)	709, 1192
CspAI	ACCGGT	1 cut(s)	1253
CviAII	CATG	9 cut(s)	70, 88, 227, 385, 625, 641, 802, 974, 1249
CviQI	GTAC	2 cut(s)	709, 1192
DdeI	CTNAG	5 cut(s)	156, 474, 911, 1017, 1086
DpnI	GATC	5 cut(s)	211, 256, 261, 924, 1272
DpnII	GATC	5 cut(s)	209, 254, 259, 922, 1270
EaeI	YGGCCR	1 cut(s)	976
Eam1104I	CTCTTC	3 cut(s)	483, 678, 935
EarI	CTCTTC	3 cut(s)	483, 678, 935
EciI	GGCGGA	1 cut(s)	522
Eco130I	CCWWGG	3 cut(s)	69, 316, 973
Eco147I	AGGCCT	1 cut(s)	1116
Eco31I	GGTCTC	2 cut(s)	991, 1013
Eco32I	GATATC	2 cut(s)	461, 523
Eco47I	GGWCC	1 cut(s)	289
Eco88I	CYCGRG	1 cut(s)	191
EcoRI	GAATTC	1 cut(s)	451
EcoRII	CCWGG	1 cut(s)	806
EcoRV	GATATC	2 cut(s)	461, 523
EcoT14I	CCWWGG	3 cut(s)	69, 316, 973
ErhI	CCWWGG	3 cut(s)	69, 316, 973
FaeI	CATG	9 cut(s)	73, 91, 230, 388, 628, 644, 805, 977, 1252
FaqI	GGGAC	2 cut(s)	298, 934
FatI	CATG	9 cut(s)	69, 87, 226, 384, 624, 640, 801, 973, 1248
FauNDI	CATATG	1 cut(s)	264
FblI	GTMKAC	1 cut(s)	934
FokI	GGATG	2 cut(s)	842, 1053
FspBI	CTAG	4 cut(s)	144, 207, 215, 902
GlaI	GCGC	2 cut(s)	396, 906
GsaI	CCCAGC	1 cut(s)	180
HaeIII	GGCC	6 cut(s)	515, 582, 621, 800, 978, 1116
HapII	CCGG	1 cut(s)	1254
HhaI	GCGC	2 cut(s)	397, 907
Hin1II	CATG	9 cut(s)	73, 91, 230, 388, 628, 644, 805, 977, 1252
Hin6I	GCGC	2 cut(s)	395, 905
HinP1I	GCGC	2 cut(s)	395, 905
HincII	GTYRAC	1 cut(s)	170
HindII	GTYRAC	1 cut(s)	170
HinfI	GANTC	7 cut(s)	14, 65, 421, 1082, 1211, 1223, 1228
HpaII	CCGG	1 cut(s)	1254
HphI	GGTGA	2 cut(s)	9, 1268
Hpy166II	GTNNAC	2 cut(s)	170, 935
Hpy188I	TCNGA	5 cut(s)	64, 259, 592, 885, 1087
Hpy188III	TCNNGA	4 cut(s)	191, 207, 456, 926
Hpy8I	GTNNAC	2 cut(s)	170, 935
Hpy99I	CGWCG	1 cut(s)	521
HpyAV	CCTTC	2 cut(s)	230, 962
HpyCH4III	ACNGT	3 cut(s)	241, 312, 483
HpyCH4V	TGCA	5 cut(s)	615, 761, 854, 874, 1154
HpyF10VI	GCNNNNNNNGC	6 cut(s)	119, 424, 579, 618, 767, 797
HpyF3I	CTNAG	5 cut(s)	156, 474, 911, 1017, 1086
Hsp92II	CATG	9 cut(s)	73, 91, 230, 388, 628, 644, 805, 977, 1252
HspAI	GCGC	2 cut(s)	395, 905
Kzo9I	GATC	5 cut(s)	209, 254, 259, 922, 1270
LmnI	GCTCC	2 cut(s)	235, 764
Lsp1109I	GCAGC	9 cut(s)	86, 100, 449, 599, 779, 831, 906, 999, 1001
LweI	GCATC	5 cut(s)	100, 318, 820, 861, 1112
MaeI	CTAG	4 cut(s)	144, 207, 215, 902
MaeIII	GTNAC	3 cut(s)	364, 477, 840
MalI	GATC	5 cut(s)	211, 256, 261, 924, 1272
MboI	GATC	5 cut(s)	209, 254, 259, 922, 1270
MlsI	TGGCCA	1 cut(s)	978
MluCI	AATT	9 cut(s)	127, 343, 451, 593, 644, 1002, 1032, 1138, 1202
MluNI	TGGCCA	1 cut(s)	978
MlyI	GAGTC	4 cut(s)	8, 59, 1076, 1217
MmeI	TCCRAC	1 cut(s)	260
Mox20I	TGGCCA	1 cut(s)	978
MroXI	GAANNNNTTC	1 cut(s)	1059
MscI	TGGCCA	1 cut(s)	978
MseI	TTAA	2 cut(s)	824, 1285
MslI	CAYNNNNRTG	2 cut(s)	849, 1278
Msp20I	TGGCCA	1 cut(s)	978
MspA1I	CMGCKG	2 cut(s)	632, 897
MspCI	CTTAAG	1 cut(s)	823
MspI	CCGG	1 cut(s)	1254
MspR9I	CCNGG	1 cut(s)	808
Mva1269I	GAATGC	2 cut(s)	180, 397
MvaI	CCWGG	1 cut(s)	808
MwoI	GCNNNNNNNGC	6 cut(s)	119, 424, 579, 618, 767, 797
NcoI	CCATGG	2 cut(s)	69, 973
NdeI	CATATG	1 cut(s)	264
NdeII	GATC	5 cut(s)	209, 254, 259, 922, 1270
NlaIII	CATG	9 cut(s)	73, 91, 230, 388, 628, 644, 805, 977, 1252
NmuCI	GTSAC	3 cut(s)	364, 477, 840
NspV	TTCGAA	2 cut(s)	133, 1053
PaeR7I	CTCGAG	1 cut(s)	191
PceI	AGGCCT	1 cut(s)	1116
PctI	GAATGC	2 cut(s)	180, 397
PdmI	GAANNNNTTC	1 cut(s)	1059
PfeI	GAWTC	3 cut(s)	421, 1211, 1228
PflMI	CCANNNNNTGG	1 cut(s)	721
PinAI	ACCGGT	1 cut(s)	1253
PleI	GAGTC	4 cut(s)	8, 59, 1076, 1217
PpsI	GAGTC	4 cut(s)	8, 59, 1076, 1217
Psp6I	CCWGG	1 cut(s)	806
PspFI	CCCAGC	1 cut(s)	176
PspGI	CCWGG	1 cut(s)	806
PspPI	GGNCC	2 cut(s)	289, 580
PstNI	CAGNNNCTG	1 cut(s)	481
PvuII	CAGCTG	1 cut(s)	632
RsaI	GTAC	2 cut(s)	710, 1193
RsaNI	GTAC	2 cut(s)	709, 1192
RseI	CAYNNNNRTG	2 cut(s)	849, 1278
SaqAI	TTAA	2 cut(s)	824, 1285
Sau3AI	GATC	5 cut(s)	209, 254, 259, 922, 1270
Sau96I	GGNCC	2 cut(s)	289, 580
ScaI	AGTACT	1 cut(s)	710
SchI	GAGTC	4 cut(s)	8, 59, 1076, 1217
ScrFI	CCNGG	1 cut(s)	808
SfaNI	GCATC	5 cut(s)	100, 318, 820, 861, 1112
Sfr274I	CTCGAG	1 cut(s)	191
SfuI	TTCGAA	2 cut(s)	133, 1053
SinI	GGWCC	1 cut(s)	289
SlaI	CTCGAG	1 cut(s)	191
SmiMI	CAYNNNNRTG	2 cut(s)	849, 1278
SmlI	CTYRAG	5 cut(s)	34, 191, 409, 794, 823
SmoI	CTYRAG	5 cut(s)	34, 191, 409, 794, 823
Sse9I	AATT	9 cut(s)	127, 343, 451, 593, 644, 1002, 1032, 1138, 1202
SseBI	AGGCCT	1 cut(s)	1116
SsiI	CCGC	5 cut(s)	245, 507, 897, 1039, 1208
SspMI	CTAG	4 cut(s)	144, 207, 215, 902
StuI	AGGCCT	1 cut(s)	1116
StyD4I	CCNGG	1 cut(s)	806
StyI	CCWWGG	3 cut(s)	69, 316, 973
TaaI	ACNGT	3 cut(s)	241, 312, 483
TaqI	TCGA	7 cut(s)	133, 192, 519, 653, 925, 1053, 1226
TasI	AATT	9 cut(s)	127, 343, 451, 593, 644, 1002, 1032, 1138, 1202
TatI	WGTACW	2 cut(s)	708, 1191
TauI	GCSGC	1 cut(s)	248
TfiI	GAWTC	3 cut(s)	421, 1211, 1228
Tru1I	TTAA	2 cut(s)	824, 1285
Tru9I	TTAA	2 cut(s)	824, 1285
TscAI	CASTG	3 cut(s)	315, 486, 535
TseFI	GTSAC	3 cut(s)	364, 477, 840
TseI	GCWGC	9 cut(s)	74, 113, 437, 612, 767, 819, 894, 989, 1012
Tsp45I	GTSAC	3 cut(s)	364, 477, 840
TspDTI	ATGAA	7 cut(s)	43, 173, 215, 373, 657, 1055, 1135
TspRI	CASTG	3 cut(s)	315, 486, 535
Van91I	CCANNNNNTGG	1 cut(s)	721
Vha464I	CTTAAG	1 cut(s)	823
VpaK11BI	GGWCC	1 cut(s)	289
XapI	RAATTY	3 cut(s)	451, 644, 1202
XbaI	TCTAGA	1 cut(s)	206
XhoI	CTCGAG	1 cut(s)	191
XmiI	GTMKAC	1 cut(s)	934
XmnI	GAANNNNTTC	1 cut(s)	1059
XspI	CTAG	4 cut(s)	144, 207, 215, 902
ZrmI	AGTACT	1 cut(s)	710

Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.