Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000001

Orthogroup ID

OG0010595

Physical Location & Seq

Genomic Coordinates Reverse (-)

54024957 .. 54028193

Gene Structure 3237 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug01G0443200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1218 bp

ATGGCGAACAAAAGACAGAGAGAGGCACGCAAGAAATTCAGAGCAGAGCACCCAGAACTGGTTAAAACCCCAGAGCCAACTCCCCCAAAAGACCCAAGCAAGAAGAAGAAGGTAAAGAAGCCCAGCTTCAAGCGCAAGAGATCAGAATCTGGAGCACCCAATGACCCGGATAGAGCAGCCAAGAAGTCTCGGAGTAAACACCCACTTAGAGTCCCTGGTATGAAGCCCGGTGATAGCTGCTTCATTTGTAAAGGCACTGACCATATTGCCAAGCTTTGCCCTGAGAAAGCTGAGTGGGATAGGCACAAGATATGCTTGTTCTGTCGACAACGCGGGCATAGTCTGAAGAATTGCCAAAAGAAGAATGAGAATGATACGGAGGCGAAGTTATGTTATAATTGTGGGGAAACCGGGCATTCGCTTTCTAGATGCCCCTTACCTCTTCAAGATGGAGGAACTAAATTTGCCAAGTGCTTCGTCTGTAACGAGACTGGTCACCTGAGCAAGGACTGTCCTAAAAACTCTCATGGGATTTATCCAAAGGGTGGTTCTTGTAAAATATGTGGCGGTGTAACACATTTGGCACGAGACTGTCCTAACAAAGACAGCAGGAATTCAATAGGTTCTGGCAATTCTAATCCCAAATGGAATGAACCAAGAGGAAAGGTTACCAAATTTGCGAGTGGAGATGATCTTGAGGATGATTTCAGTTTCATAGGTGAGAAGACTGTTGCCAAAACAGTAGACGAGTCTGCCAATGTAGTTGGTGCTGCTTCTCTTCCACAAGAAAGTAACGCCGCCTCGCCTGGCTTTGCAGTGTCCGGCCTAGCCGTGAATGAGGAGTGCAAGCAGAAGTTCTTGGAGCTAAAAGCCAAGAGAAACCATCGTTTCATTATATTCAAGATTGATAAGCAAGAAGTGGTGGTAGAGAAACTTGGAGAGCCAGACGAAACTTACGATGATTTCACAGCCTCGCTGCCTGCGGAGGAGTGCCGCTATGCTGTGTTTGATCTTGATTTCACCACTATTGAGAACTGCCAGAAAAGCAAGATTTTCTTCATTGCATGGTCACCTGATACATCAAAGGTGAGAATGAAGATGGTGTATGCTAGCTCCAAAGATAGATTCAAGAGAGAATTGGACGGCATTCAAGTTGAGTTGCAAGCAACTGATCCAAGTGAATTGAGCTTTGACATTATAAAATCCCGAGCTCTTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0005575 GO:0005618 GO:0005623 GO:0005886 GO:0006139 GO:0006163 GO:0006725 GO:0006753 GO:0006793 GO:0006796 GO:0006807 GO:0006950 GO:0008150 GO:0008152 GO:0008728 GO:0008893 GO:0009116 GO:0009117 GO:0009119 GO:0009150 GO:0009259 GO:0009605 GO:0009987 GO:0009991 GO:0015969 GO:0016020 GO:0016740 GO:0016772 GO:0016778 GO:0016787 GO:0016788 GO:0016794 GO:0019637 GO:0019693 GO:0030312 GO:0031667 GO:0033865 GO:0033875 GO:0034032 GO:0034035 GO:0034641 GO:0042278 GO:0042578 GO:0042594 GO:0044237 GO:0044238 GO:0044281 GO:0044464 GO:0046128 GO:0046483 GO:0050896 GO:0055086 GO:0071704 GO:0071944 GO:0072521 GO:1901068 GO:1901135 GO:1901360 GO:1901564 GO:1901657

KEGG Pathways

Metabolic & Signaling

ko00230 map00230

Pfam Domains

Protein Families

HD_4 RelA_SpoT TGS

Protein Analysis

405

Amino Acids

45.24

Weight (kDa)

9.13

Isoelectric Point (pI)

42.52

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-CCHC	PF00098	157 - 173	4.7e-06	Zinc knuckle
Cofilin_ADF	PF00241	276 - 403	7.3e-42	Cofilin/tropomyosin-type actin-binding protein

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0010595)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_7g33820 FvH4_7g33820
malus_domestica	MD07G1306500.v1.1
prunus_persica	Prupe.2G324500_v2.0.a1 Prupe.2G324500_v2.0.a1 Prupe.2G324500_v2.0.a1 Prupe.2G324500_v2.0.a1 Prupe.2G324500_v2.0.a1
pyrus_communis	pycom07g27950
rosa_chinensis	RchiOBHm_Chr1g0383931
rosa_laevigata	RLG00000026085
rosa_multiflora	Rmu_sc0005139.1_g000026
rosa_roxburghii	Rroxscaffold_4G00277130
rosa_rugosa	Rorug01G0443100 Rorug01G0443200 Rorug01G0443400.1 Rorug01G0443500.1
rosa_samantha	Rh1AG469100 Rh1CG439600 Rh1DG459600
rosa_wichuraiana	Rw1G040330

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	2 cut(s)	396, 1199
AccB7I	CCANNNNNTGG	1 cut(s)	545
AccI	GTMKAC	2 cut(s)	325, 744
AccII	CGCG	1 cut(s)	333
AciI	CCGC	5 cut(s)	333, 567, 798, 983, 994
AclWI	GGATC	1 cut(s)	1166
AcsI	RAATTY	4 cut(s)	35, 461, 613, 674
AcuI	CTGAAG	1 cut(s)	365
AfiI	CCNNNNNNNGG	3 cut(s)	58, 505, 545
AgsI	TTSAA	6 cut(s)	130, 446, 618, 901, 1129, 1151
AjnI	CCWGG	2 cut(s)	214, 805
AjuI	GAANNNNNNNTTGG	4 cut(s)	532, 564, 1109, 1141
AluBI	AGCT	8 cut(s)	126, 237, 274, 290, 865, 1113, 1188, 1211
AluI	AGCT	8 cut(s)	126, 237, 274, 290, 865, 1113, 1188, 1211
Alw21I	GWGCWC	3 cut(s)	51, 157, 1213
Alw26I	GTCTC	3 cut(s)	192, 482, 582
AlwI	GGATC	1 cut(s)	1166
AlwNI	CAGNNNCTG	1 cut(s)	149
Ama87I	CYCGRG	1 cut(s)	1206
AoxI	GGCC	1 cut(s)	823
ApeKI	GCWGC	4 cut(s)	176, 237, 770, 976
ApoI	RAATTY	4 cut(s)	35, 461, 613, 674
AspLEI	GCGC	1 cut(s)	135
AsuC2I	CCSGG	3 cut(s)	167, 228, 412
AsuHPI	GGTGA	6 cut(s)	242, 488, 731, 1012, 1062, 1099
AsuNHI	GCTAGC	1 cut(s)	1109
AvaI	CYCGRG	1 cut(s)	1206
BanII	GRGCYC	1 cut(s)	1213
BauI	CACGAG	1 cut(s)	585
BbsI	GAAGAC	1 cut(s)	731
Bbv12I	GWGCWC	3 cut(s)	51, 157, 1213
BbvI	GCAGC	4 cut(s)	188, 224, 757, 963
BccI	CCATC	3 cut(s)	443, 891, 1093
BceAI	ACGGC	2 cut(s)	815, 1159
BciT130I	CCWGG	2 cut(s)	216, 807
BcnI	CCSGG	3 cut(s)	167, 228, 412
BcoDI	GTCTC	3 cut(s)	192, 482, 582
BfaI	CTAG	3 cut(s)	426, 827, 1110
BisI	GCNGC	6 cut(s)	177, 238, 771, 798, 977, 994
BlsI	GCNGC	6 cut(s)	178, 239, 772, 799, 978, 995
Bme1390I	CCNGG	5 cut(s)	167, 216, 228, 412, 807
BmeT110I	CYCGRG	1 cut(s)	1206
BmrFI	CCNGG	5 cut(s)	167, 216, 228, 412, 807
BmsI	GCATC	1 cut(s)	419
BmtI	GCTAGC	1 cut(s)	1113
BpiI	GAAGAC	1 cut(s)	731
BpmI	CTGGAG	1 cut(s)	171
Bpu10I	CCTNAGC	1 cut(s)	500
BpuEI	CTTGAG	1 cut(s)	716
BpuMI	CCSGG	3 cut(s)	167, 228, 412
BsaBI	GATNNNNATC	1 cut(s)	145
BsaJI	CCNNGG	1 cut(s)	214
BsaXI	ACNNNNNCTCC	2 cut(s)	371, 401
Bsc4I	CCNNNNNNNGG	3 cut(s)	58, 505, 545
Bse1I	ACTGG	2 cut(s)	63, 496
Bse3DI	GCAATG	1 cut(s)	1059
Bse8I	GATNNNNATC	1 cut(s)	145
BseBI	CCWGG	2 cut(s)	216, 807
BseDI	CCNNGG	1 cut(s)	214
BseGI	GGATG	1 cut(s)	706
BseJI	GATNNNNATC	1 cut(s)	145
BseLI	CCNNNNNNNGG	3 cut(s)	58, 505, 545
BseMI	GCAATG	1 cut(s)	1059
BseMII	CTCAG	3 cut(s)	273, 282, 491
BseNI	ACTGG	2 cut(s)	63, 496
BseRI	GAGGAG	2 cut(s)	854, 1001
BseXI	GCAGC	4 cut(s)	188, 224, 757, 963
BseYI	CCCAGC	1 cut(s)	122
Bsh1236I	CGCG	1 cut(s)	333
BshFI	GGCC	1 cut(s)	825
BsiHKAI	GWGCWC	3 cut(s)	51, 157, 1213
BsiHKCI	CYCGRG	1 cut(s)	1206
BsiSI	CCGG	4 cut(s)	167, 228, 411, 822
BslFI	GGGAC	1 cut(s)	197
BslI	CCNNNNNNNGG	3 cut(s)	58, 505, 545
BsmAI	GTCTC	3 cut(s)	192, 482, 582
BsmFI	GGGAC	1 cut(s)	197
BsmI	GAATGC	2 cut(s)	415, 1146
BsnI	GGCC	1 cut(s)	825
BsoBI	CYCGRG	1 cut(s)	1206
Bsp1286I	GDGCHC	3 cut(s)	51, 157, 1213
Bsp143I	GATC	4 cut(s)	140, 691, 1009, 1171
BspACI	CCGC	5 cut(s)	333, 567, 798, 983, 994
BspANI	GGCC	1 cut(s)	825
BspCNI	CTCAG	3 cut(s)	274, 283, 492
BspFNI	CGCG	1 cut(s)	333
BspOI	GCTAGC	1 cut(s)	1113
BspPI	GGATC	1 cut(s)	1166
BsrDI	GCAATG	1 cut(s)	1059
BsrI	ACTGG	2 cut(s)	63, 496
BssECI	CCNNGG	1 cut(s)	214
BssMI	GATC	4 cut(s)	140, 691, 1009, 1171
BssSI	CACGAG	1 cut(s)	585
Bst2BI	CACGAG	1 cut(s)	585
Bst2UI	CCWGG	2 cut(s)	216, 807
Bst4CI	ACNGT	4 cut(s)	512, 593, 730, 742
Bst6I	CTCTTC	2 cut(s)	447, 783
BstC8I	GCNNGC	6 cut(s)	28, 335, 848, 981, 1111, 1164
BstDEI	CTNAG	4 cut(s)	206, 282, 291, 500
BstEII	GGTNACC	3 cut(s)	494, 667, 1068
BstENI	CCTNNNNNAGG	1 cut(s)	503
BstF5I	GGATG	1 cut(s)	706
BstFNI	CGCG	1 cut(s)	333
BstHHI	GCGC	1 cut(s)	135
BstKTI	GATC	4 cut(s)	143, 694, 1012, 1174
BstMAI	GTCTC	3 cut(s)	192, 482, 582
BstMBI	GATC	4 cut(s)	140, 691, 1009, 1171
BstMWI	GCNNNNNNNGC	2 cut(s)	132, 1044
BstNI	CCWGG	2 cut(s)	216, 807
BstPI	GGTNACC	3 cut(s)	494, 667, 1068
BstSCI	CCNGG	5 cut(s)	165, 214, 226, 410, 805
BstUI	CGCG	1 cut(s)	333
BstV1I	GCAGC	4 cut(s)	188, 224, 757, 963
BstV2I	GAAGAC	1 cut(s)	731
BsuRI	GGCC	1 cut(s)	825
BtsCI	GGATG	1 cut(s)	706
BtsI	GCAGTG	1 cut(s)	822
BtsIMutI	CAGTG	2 cut(s)	255, 822
Cac8I	GCNNGC	6 cut(s)	28, 335, 848, 981, 1111, 1164
CaiI	CAGNNNCTG	1 cut(s)	149
CfoI	GCGC	1 cut(s)	135
CviAII	CATG	2 cut(s)	527, 1065
DdeI	CTNAG	4 cut(s)	206, 282, 291, 500
DpnI	GATC	4 cut(s)	142, 693, 1011, 1173
DpnII	GATC	4 cut(s)	140, 691, 1009, 1171
Eam1104I	CTCTTC	2 cut(s)	447, 783
EarI	CTCTTC	2 cut(s)	447, 783
Ecl136II	GAGCTC	1 cut(s)	1211
Eco24I	GRGCYC	1 cut(s)	1213
Eco53kI	GAGCTC	1 cut(s)	1211
Eco57I	CTGAAG	1 cut(s)	365
Eco88I	CYCGRG	1 cut(s)	1206
Eco91I	GGTNACC	3 cut(s)	494, 667, 1068
EcoICRI	GAGCTC	1 cut(s)	1211
EcoNI	CCTNNNNNAGG	1 cut(s)	503
EcoO65I	GGTNACC	3 cut(s)	494, 667, 1068
EcoRI	GAATTC	1 cut(s)	613
EcoRII	CCWGG	2 cut(s)	214, 805
EcoT38I	GRGCYC	1 cut(s)	1213
FaeI	CATG	2 cut(s)	530, 1068
FalI	AAGNNNNNCTT	6 cut(s)	110, 142, 299, 331, 1040, 1072
FaqI	GGGAC	1 cut(s)	197
FatI	CATG	2 cut(s)	526, 1064
FauI	CCCGC	1 cut(s)	326
FblI	GTMKAC	2 cut(s)	325, 744
Fnu4HI	GCNGC	6 cut(s)	177, 238, 771, 798, 977, 994
FokI	GGATG	1 cut(s)	713
FriOI	GRGCYC	1 cut(s)	1213
Fsp4HI	GCNGC	6 cut(s)	177, 238, 771, 798, 977, 994
FspBI	CTAG	3 cut(s)	426, 827, 1110
GlaI	GCGC	1 cut(s)	134
GluI	GCNGC	6 cut(s)	177, 238, 771, 798, 977, 994
GsaI	CCCAGC	1 cut(s)	126
GsuI	CTGGAG	1 cut(s)	171
HaeIII	GGCC	1 cut(s)	825
HapII	CCGG	4 cut(s)	167, 228, 411, 822
HhaI	GCGC	1 cut(s)	135
Hin1II	CATG	2 cut(s)	530, 1068
Hin6I	GCGC	1 cut(s)	133
HinP1I	GCGC	1 cut(s)	133
HincII	GTYRAC	1 cut(s)	326
HindII	GTYRAC	1 cut(s)	326
HindIII	AAGCTT	1 cut(s)	272
HinfI	GANTC	4 cut(s)	146, 210, 749, 1125
HpaII	CCGG	4 cut(s)	167, 228, 411, 822
HphI	GGTGA	6 cut(s)	242, 488, 731, 1012, 1062, 1099
Hpy166II	GTNNAC	3 cut(s)	197, 326, 745
Hpy188I	TCNGA	4 cut(s)	41, 145, 192, 345
Hpy188III	TCNNGA	8 cut(s)	150, 426, 446, 695, 901, 1013, 1129, 1206
Hpy8I	GTNNAC	3 cut(s)	197, 326, 745
HpyAV	CCTTC	1 cut(s)	103
HpyCH4III	ACNGT	4 cut(s)	512, 593, 730, 742
HpyCH4V	TGCA	4 cut(s)	815, 846, 1064, 1162
HpyF10VI	GCNNNNNNNGC	2 cut(s)	132, 1044
HpyF3I	CTNAG	4 cut(s)	206, 282, 291, 500
Hsp92II	CATG	2 cut(s)	530, 1068
HspAI	GCGC	1 cut(s)	133
Kzo9I	GATC	4 cut(s)	140, 691, 1009, 1171
LmnI	GCTCC	3 cut(s)	152, 862, 1118
Lsp1109I	GCAGC	4 cut(s)	188, 224, 757, 963
LweI	GCATC	1 cut(s)	419
MaeI	CTAG	3 cut(s)	426, 827, 1110
MaeIII	GTNAC	6 cut(s)	482, 494, 571, 667, 791, 1068
MalI	GATC	4 cut(s)	142, 693, 1011, 1173
MboI	GATC	4 cut(s)	140, 691, 1009, 1171
MboII	GAAGA	9 cut(s)	115, 118, 358, 373, 434, 736, 770, 1048, 1108
MhlI	GDGCHC	3 cut(s)	51, 157, 1213
MluCI	AATT	9 cut(s)	35, 349, 397, 461, 613, 631, 674, 1136, 1181
MlyI	GAGTC	2 cut(s)	219, 758
MseI	TTAA	2 cut(s)	63, 1216
MspI	CCGG	4 cut(s)	167, 228, 411, 822
MspR9I	CCNGG	5 cut(s)	167, 216, 228, 412, 807
Mva1269I	GAATGC	2 cut(s)	415, 1146
MvaI	CCWGG	2 cut(s)	216, 807
MvnI	CGCG	1 cut(s)	333
MwoI	GCNNNNNNNGC	2 cut(s)	132, 1044
NciI	CCSGG	3 cut(s)	167, 228, 412
NdeII	GATC	4 cut(s)	140, 691, 1009, 1171
NheI	GCTAGC	1 cut(s)	1109
NlaIII	CATG	2 cut(s)	530, 1068
NmuCI	GTSAC	2 cut(s)	494, 1068
PcsI	WCGNNNNNNNCGW	2 cut(s)	483, 954
PctI	GAATGC	2 cut(s)	415, 1146
PfeI	GAWTC	2 cut(s)	146, 1125
PflMI	CCANNNNNTGG	1 cut(s)	545
PkrI	GCNGC	6 cut(s)	178, 239, 772, 799, 978, 995
PleI	GAGTC	2 cut(s)	218, 757
PpsI	GAGTC	2 cut(s)	218, 757
PsiI	TTATAA	2 cut(s)	396, 1199
Psp124BI	GAGCTC	1 cut(s)	1213
Psp6I	CCWGG	2 cut(s)	214, 805
PspEI	GGTNACC	3 cut(s)	494, 667, 1068
PspFI	CCCAGC	1 cut(s)	122
PspGI	CCWGG	2 cut(s)	214, 805
PstNI	CAGNNNCTG	1 cut(s)	149
SacI	GAGCTC	1 cut(s)	1213
SalI	GTCGAC	1 cut(s)	324
SaqAI	TTAA	2 cut(s)	63, 1216
SatI	GCNGC	6 cut(s)	177, 238, 771, 798, 977, 994
Sau3AI	GATC	4 cut(s)	140, 691, 1009, 1171
SchI	GAGTC	2 cut(s)	219, 758
ScrFI	CCNGG	5 cut(s)	167, 216, 228, 412, 807
SduI	GDGCHC	3 cut(s)	51, 157, 1213
SfaNI	GCATC	1 cut(s)	419
SmlI	CTYRAG	1 cut(s)	695
SmoI	CTYRAG	1 cut(s)	695
Sse9I	AATT	9 cut(s)	35, 349, 397, 461, 613, 631, 674, 1136, 1181
SsiI	CCGC	5 cut(s)	333, 567, 798, 983, 994
SspMI	CTAG	3 cut(s)	426, 827, 1110
SstI	GAGCTC	1 cut(s)	1213
StyD4I	CCNGG	5 cut(s)	165, 214, 226, 410, 805
TaaI	ACNGT	4 cut(s)	512, 593, 730, 742
TaqI	TCGA	1 cut(s)	325
TasI	AATT	9 cut(s)	35, 349, 397, 461, 613, 631, 674, 1136, 1181
TauI	GCSGC	2 cut(s)	800, 996
TfiI	GAWTC	2 cut(s)	146, 1125
Tru1I	TTAA	2 cut(s)	63, 1216
Tru9I	TTAA	2 cut(s)	63, 1216
TscAI	CASTG	2 cut(s)	262, 822
TseFI	GTSAC	2 cut(s)	494, 1068
TseI	GCWGC	4 cut(s)	176, 237, 770, 976
Tsp45I	GTSAC	2 cut(s)	494, 1068
TspDTI	ATGAA	7 cut(s)	232, 236, 666, 703, 880, 1048, 1109
TspGWI	ACGGA	1 cut(s)	392
TspRI	CASTG	2 cut(s)	262, 822
Van91I	CCANNNNNTGG	1 cut(s)	545
XagI	CCTNNNNNAGG	1 cut(s)	503
XapI	RAATTY	4 cut(s)	35, 461, 613, 674
XbaI	TCTAGA	1 cut(s)	425
XmiI	GTMKAC	2 cut(s)	325, 744
XspI	CTAG	3 cut(s)	426, 827, 1110

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