Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4B

Orthogroup ID

OG0003337

Physical Location & Seq

Genomic Coordinates Forward (+)

38698423 .. 38701683

Gene Structure 3261 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4BG224200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1032 bp

ATGGCTCCGGCGACGATGATCGTCACCAACACTCCGGCCACCGATCTTGCTCTCACCTACTTCTCACCGATCGATCTCCAGACCTTCGCCATTCCCGGCACCAAGCTCAACCCAGCTCTAATCGCCGACTCGTTCGGTTACATTGCGCTGAATGCGATTCAACGACGGCATGCTAGGGTTTCTAGCGGTGACTTATTATCTGTGAGCAGGTTTTCTCCGCCTGATGATTTCAACCTGACTGTGCTCACTCTGGAATTGGAGTTGGTGAAAAAAGGGACTAAGAGTGAACAGATTGATGCTGTTGCCTTGTGGAGCCAACTTAAAAAGAGGTTTATCAACCAGGTTATGGCAGCTGGACAAAGAGTGTCATTTCAGTACCATGGGACTATTTACATTTTTACAGTCAATCAAGCTTGGAAATGGAATAAAGTGAGATTGTTTTCAAATGATATCAGCCTCAGTATTTTTAAGATTGTGAACCAACGTTCTGATACGACTACCAATATCTTTAAGCACAAGGAATTCAATCTTCAAACACTTGGCATTGGTGGATTAGGTGATGAGTTTGCAGATATATTTCGAAGAGCTTTTGCCTCCCGTATCTTCCCTGCACATGTTACAAATAAACTAGGGCTTAAGCATGTGAAGGGTATGCTGCTTTATGGACCACCTGGAGATGAAAGTGAATTGCATGTCATAATCTCTGATGAAATCAGTGCTATTTTTAGTTACAAAGAACTGGAAGGTGTTGTTAAAAGTGCAGTATCATTTGCTTTGAATAGACAACTAAGTTTGGATGATCTTACCGAGCCATATCTTACCAAACCAGTAGATGAAGCGAGTATTAAGTTGGAGCCTCCGCTGATGACCCTGAAAGATGCAGACTTCATGGCATGGTGTATTATGGGGATTGACATAAGCACATCTATCAAAGAGCCATCCTACTTGTGGAGCAAGTTAAATCAAGTGACAGAAGCCCACTTGTTACATGCCTTCTGGAAAGTCCTAGTGGCAGTGGTAAATCTTCACTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005773 GO:0005794 GO:0005886 GO:0005911 GO:0009506 GO:0012505 GO:0016020 GO:0030054 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044444 GO:0044464 GO:0055044 GO:0071944

KEGG Pathways

Metabolic & Signaling

ko04138 ko04721 ko04727 ko04962 map04138 map04721 map04727 map04962

Pfam Domains

Protein Families

AAA CDC48_2 CDC48_N

Protein Analysis

343

Amino Acids

38.39

Weight (kDa)

7.14

Isoelectric Point (pI)

28.77

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

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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

Orthologous Genes (Group: OG0003337)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G04910
fragaria_vesca	FvH4_3g09180 FvH4_4g01371 FvH4_4g01380
malus_domestica	MD05G1312500.v1.1 MD05G1339600.v1.1 MD10G1294300.v1.1
prunus_persica	Prupe.4G047600_v2.0.a1
pyrus_communis	pycom05g29040 pycom10g24600
rosa_chinensis	RchiOBHm_Chr4g0419821 RchiOBHm_Chr5g0005931 RchiOBHm_Chr5g0005941 RchiOBHm_Chr5g0008441
rosa_laevigata	RLG00000031340 RLG00000031347 RLG00000031352 RLG00000031389 RLG00000031572
rosa_multiflora	Rmu_sc0000720.1_g000006 Rmu_sc0004326.1_g000001 Rmu_sc0006414.1_g000006
rosa_roxburghii	Rroxscaffold_1G00068050
rosa_rugosa	Rorug04G0435800
rosa_samantha	Rh4AG222000 Rh4BG224200 Rh4CG235100 Rh4DG221000 Rh5AG064700 Rh5BG061700 Rh5CG071500 Rh5CG071600 Rh5CG071800 Rh5CG071900
rosa_wichuraiana	Rw4G019100 Rw5G005630

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	198
AccB1I	GGYRCC	1 cut(s)	98
AccB7I	CCANNNNNTGG	1 cut(s)	346
AciI	CCGC	3 cut(s)	186, 218, 860
AclI	AACGTT	1 cut(s)	484
AcoI	YGGCCR	1 cut(s)	36
AcsI	RAATTY	1 cut(s)	521
AfaI	GTAC	1 cut(s)	377
AfiI	CCNNNNNNNGG	2 cut(s)	346, 948
AflII	CTTAAG	1 cut(s)	635
AflIII	ACRYGT	1 cut(s)	613
AgsI	TTSAA	6 cut(s)	161, 232, 444, 526, 533, 778
AjnI	CCWGG	2 cut(s)	339, 670
AluBI	AGCT	5 cut(s)	106, 116, 353, 413, 587
AluI	AGCT	5 cut(s)	106, 116, 353, 413, 587
Alw21I	GWGCWC	1 cut(s)	246
AoxI	GGCC	1 cut(s)	36
ApeKI	GCWGC	2 cut(s)	350, 655
ApoI	RAATTY	1 cut(s)	521
AspLEI	GCGC	1 cut(s)	148
AspS9I	GGNCC	1 cut(s)	665
AsuC2I	CCSGG	1 cut(s)	96
AsuHPI	GGTGA	6 cut(s)	16, 46, 57, 200, 277, 569
AsuII	TTCGAA	1 cut(s)	580
AvaII	GGWCC	1 cut(s)	665
BanI	GGYRCC	1 cut(s)	98
Bbv12I	GWGCWC	1 cut(s)	246
BbvI	GCAGC	2 cut(s)	362, 642
BccI	CCATC	1 cut(s)	946
BceAI	ACGGC	1 cut(s)	182
BciT130I	CCWGG	2 cut(s)	341, 672
BcnI	CCSGG	1 cut(s)	96
BfaI	CTAG	5 cut(s)	174, 183, 629, 1007, 1030
BfrI	CTTAAG	1 cut(s)	635
BfuAI	ACCTGC	1 cut(s)	198
BisI	GCNGC	2 cut(s)	351, 656
BlsI	GCNGC	2 cut(s)	352, 657
Bme1390I	CCNGG	3 cut(s)	96, 341, 672
Bme18I	GGWCC	1 cut(s)	665
BmgT120I	GGNCC	1 cut(s)	665
BmiI	GGNNCC	4 cut(s)	6, 100, 314, 855
BmrFI	CCNGG	3 cut(s)	96, 341, 672
BmsI	GCATC	2 cut(s)	286, 868
BpmI	CTGGAG	2 cut(s)	62, 693
Bpu14I	TTCGAA	1 cut(s)	580
BpuMI	CCSGG	1 cut(s)	96
Bsa29I	ATCGAT	1 cut(s)	72
BsaJI	CCNNGG	1 cut(s)	379
BsaXI	ACNNNNNCTCC	2 cut(s)	16, 46
Bsc4I	CCNNNNNNNGG	2 cut(s)	346, 948
Bse1I	ACTGG	2 cut(s)	744, 827
Bse3DI	GCAATG	1 cut(s)	141
BseBI	CCWGG	2 cut(s)	341, 672
BseCI	ATCGAT	1 cut(s)	72
BseDI	CCNNGG	1 cut(s)	379
BseGI	GGATG	2 cut(s)	802, 938
BseLI	CCNNNNNNNGG	2 cut(s)	346, 948
BseMI	GCAATG	1 cut(s)	141
BseMII	CTCAG	1 cut(s)	472
BseNI	ACTGG	2 cut(s)	744, 827
BseXI	GCAGC	2 cut(s)	362, 642
BseYI	CCCAGC	1 cut(s)	112
BsgI	GTGCAG	2 cut(s)	594, 780
Bsh1285I	CGRYCG	1 cut(s)	72
BshFI	GGCC	1 cut(s)	38
BshNI	GGYRCC	1 cut(s)	98
BshVI	ATCGAT	1 cut(s)	72
BsiEI	CGRYCG	1 cut(s)	72
BsiHKAI	GWGCWC	1 cut(s)	246
BsiSI	CCGG	3 cut(s)	8, 35, 96
BslFI	GGGAC	2 cut(s)	289, 397
BslI	CCNNNNNNNGG	2 cut(s)	346, 948
BsmFI	GGGAC	2 cut(s)	289, 397
BsmI	GAATGC	1 cut(s)	157
BsnI	GGCC	1 cut(s)	38
Bsp119I	TTCGAA	1 cut(s)	580
Bsp1286I	GDGCHC	1 cut(s)	246
Bsp143I	GATC	5 cut(s)	18, 43, 69, 73, 799
Bsp19I	CCATGG	1 cut(s)	379
BspACI	CCGC	3 cut(s)	186, 218, 860
BspANI	GGCC	1 cut(s)	38
BspCNI	CTCAG	1 cut(s)	471
BspDI	ATCGAT	1 cut(s)	72
BspLI	GGNNCC	4 cut(s)	6, 100, 314, 855
BspMI	ACCTGC	1 cut(s)	198
BspQI	GCTCTTC	1 cut(s)	577
BspT104I	TTCGAA	1 cut(s)	580
BspT107I	GGYRCC	1 cut(s)	98
BspTI	CTTAAG	1 cut(s)	635
BsrDI	GCAATG	1 cut(s)	141
BsrI	ACTGG	2 cut(s)	744, 827
BssECI	CCNNGG	1 cut(s)	379
BssMI	GATC	5 cut(s)	18, 43, 69, 73, 799
BssT1I	CCWWGG	1 cut(s)	379
Bst2UI	CCWGG	2 cut(s)	341, 672
Bst4CI	ACNGT	2 cut(s)	241, 403
Bst6I	CTCTTC	1 cut(s)	577
BstAFI	CTTAAG	1 cut(s)	635
BstBI	TTCGAA	1 cut(s)	580
BstC8I	GCNNGC	1 cut(s)	171
BstDEI	CTNAG	3 cut(s)	279, 458, 788
BstDSI	CCRYGG	1 cut(s)	379
BstF5I	GGATG	2 cut(s)	802, 938
BstHHI	GCGC	1 cut(s)	148
BstKTI	GATC	5 cut(s)	21, 46, 72, 76, 802
BstMBI	GATC	5 cut(s)	18, 43, 69, 73, 799
BstMCI	CGRYCG	1 cut(s)	72
BstMWI	GCNNNNNNNGC	2 cut(s)	122, 152
BstNI	CCWGG	2 cut(s)	341, 672
BstNSI	RCATGY	5 cut(s)	173, 617, 644, 695, 992
BstSCI	CCNGG	3 cut(s)	94, 339, 670
BstV1I	GCAGC	2 cut(s)	362, 642
Bsu15I	ATCGAT	1 cut(s)	72
BsuRI	GGCC	1 cut(s)	38
BsuTUI	ATCGAT	1 cut(s)	72
BtgI	CCRYGG	1 cut(s)	379
BtsCI	GGATG	2 cut(s)	802, 938
BtsI	GCAGTG	1 cut(s)	1020
BtsIMutI	CAGTG	2 cut(s)	721, 1020
BveI	ACCTGC	1 cut(s)	198
Cac8I	GCNNGC	1 cut(s)	171
CfoI	GCGC	1 cut(s)	148
Cfr13I	GGNCC	1 cut(s)	665
ClaI	ATCGAT	1 cut(s)	72
CsiI	ACCWGGT	1 cut(s)	339
Csp6I	GTAC	1 cut(s)	376
CspCI	CAANNNNNGTGG	2 cut(s)	28, 63
CviAII	CATG	8 cut(s)	170, 380, 614, 641, 692, 889, 894, 989
CviQI	GTAC	1 cut(s)	376
DdeI	CTNAG	3 cut(s)	279, 458, 788
DpnI	GATC	5 cut(s)	20, 45, 71, 75, 801
DpnII	GATC	5 cut(s)	18, 43, 69, 73, 799
EaeI	YGGCCR	1 cut(s)	36
Eam1104I	CTCTTC	1 cut(s)	577
EarI	CTCTTC	1 cut(s)	577
EciI	GGCGGA	1 cut(s)	207
Eco130I	CCWWGG	1 cut(s)	379
Eco32I	GATATC	1 cut(s)	451
Eco47I	GGWCC	1 cut(s)	665
EcoRI	GAATTC	1 cut(s)	521
EcoRII	CCWGG	2 cut(s)	339, 670
EcoRV	GATATC	1 cut(s)	451
EcoT14I	CCWWGG	1 cut(s)	379
ErhI	CCWWGG	1 cut(s)	379
FaeI	CATG	8 cut(s)	173, 383, 617, 644, 695, 892, 897, 992
FaqI	GGGAC	2 cut(s)	289, 397
FatI	CATG	8 cut(s)	169, 379, 613, 640, 691, 888, 893, 988
Fnu4HI	GCNGC	2 cut(s)	351, 656
FokI	GGATG	2 cut(s)	809, 925
Fsp4HI	GCNGC	2 cut(s)	351, 656
FspBI	CTAG	5 cut(s)	174, 183, 629, 1007, 1030
GlaI	GCGC	1 cut(s)	147
GluI	GCNGC	2 cut(s)	351, 656
GsaI	CCCAGC	1 cut(s)	116
GsuI	CTGGAG	2 cut(s)	62, 693
HaeIII	GGCC	1 cut(s)	38
HapII	CCGG	3 cut(s)	8, 35, 96
HhaI	GCGC	1 cut(s)	148
Hin1II	CATG	8 cut(s)	173, 383, 617, 644, 695, 892, 897, 992
Hin6I	GCGC	1 cut(s)	146
HinP1I	GCGC	1 cut(s)	146
HindIII	AAGCTT	1 cut(s)	411
HinfI	GANTC	2 cut(s)	128, 157
HpaII	CCGG	3 cut(s)	8, 35, 96
HphI	GGTGA	6 cut(s)	16, 46, 57, 200, 277, 569
Hpy166II	GTNNAC	2 cut(s)	287, 478
Hpy188I	TCNGA	2 cut(s)	490, 706
Hpy188III	TCNNGA	3 cut(s)	79, 251, 997
Hpy8I	GTNNAC	2 cut(s)	287, 478
Hpy99I	CGWCG	2 cut(s)	16, 168
HpyAV	CCTTC	4 cut(s)	94, 640, 737, 1003
HpyCH4III	ACNGT	2 cut(s)	241, 403
HpyCH4IV	ACGT	1 cut(s)	484
HpyCH4V	TGCA	5 cut(s)	569, 611, 691, 761, 881
HpyF10VI	GCNNNNNNNGC	2 cut(s)	122, 152
HpyF3I	CTNAG	3 cut(s)	279, 458, 788
HpySE526I	ACGT	1 cut(s)	484
Hsp92II	CATG	8 cut(s)	173, 383, 617, 644, 695, 892, 897, 992
HspAI	GCGC	1 cut(s)	146
Kzo9I	GATC	5 cut(s)	18, 43, 69, 73, 799
LguI	GCTCTTC	1 cut(s)	577
LmnI	GCTCC	4 cut(s)	10, 312, 853, 951
Lsp1109I	GCAGC	2 cut(s)	362, 642
LweI	GCATC	2 cut(s)	286, 868
MabI	ACCWGGT	1 cut(s)	339
MaeI	CTAG	5 cut(s)	174, 183, 629, 1007, 1030
MaeII	ACGT	1 cut(s)	484
MaeIII	GTNAC	7 cut(s)	22, 137, 188, 616, 728, 967, 984
MalI	GATC	5 cut(s)	20, 45, 71, 75, 801
MboI	GATC	5 cut(s)	18, 43, 69, 73, 799
MboII	GAAGA	4 cut(s)	521, 594, 595, 1016
MhlI	GDGCHC	1 cut(s)	246
MluCI	AATT	3 cut(s)	254, 521, 686
MlyI	GAGTC	1 cut(s)	122
MmeI	TCCRAC	1 cut(s)	831
MnlI	CCTC	4 cut(s)	321, 467, 604, 867
MseI	TTAA	7 cut(s)	321, 468, 510, 636, 753, 846, 959
MspA1I	CMGCKG	2 cut(s)	353, 862
MspCI	CTTAAG	1 cut(s)	635
MspI	CCGG	3 cut(s)	8, 35, 96
MspR9I	CCNGG	3 cut(s)	96, 341, 672
Mva1269I	GAATGC	1 cut(s)	157
MvaI	CCWGG	2 cut(s)	341, 672
MwoI	GCNNNNNNNGC	2 cut(s)	122, 152
NciI	CCSGG	1 cut(s)	96
NcoI	CCATGG	1 cut(s)	379
NdeII	GATC	5 cut(s)	18, 43, 69, 73, 799
NlaIII	CATG	8 cut(s)	173, 383, 617, 644, 695, 892, 897, 992
NlaIV	GGNNCC	4 cut(s)	6, 100, 314, 855
NmuCI	GTSAC	3 cut(s)	22, 188, 967
NspI	RCATGY	5 cut(s)	173, 617, 644, 695, 992
NspV	TTCGAA	1 cut(s)	580
PaeI	GCATGC	1 cut(s)	173
PciI	ACATGT	1 cut(s)	613
PciSI	GCTCTTC	1 cut(s)	577
PctI	GAATGC	1 cut(s)	157
PfeI	GAWTC	1 cut(s)	157
PflMI	CCANNNNNTGG	1 cut(s)	346
PkrI	GCNGC	2 cut(s)	352, 657
Ple19I	CGATCG	1 cut(s)	72
PleI	GAGTC	1 cut(s)	122
PpsI	GAGTC	1 cut(s)	122
PscI	ACATGT	1 cut(s)	613
Psp1406I	AACGTT	1 cut(s)	484
Psp6I	CCWGG	2 cut(s)	339, 670
PspFI	CCCAGC	1 cut(s)	112
PspGI	CCWGG	2 cut(s)	339, 670
PspN4I	GGNNCC	4 cut(s)	6, 100, 314, 855
PspPI	GGNCC	1 cut(s)	665
PvuI	CGATCG	1 cut(s)	72
PvuII	CAGCTG	1 cut(s)	353
RsaI	GTAC	1 cut(s)	377
RsaNI	GTAC	1 cut(s)	376
SapI	GCTCTTC	1 cut(s)	577
SaqAI	TTAA	7 cut(s)	321, 468, 510, 636, 753, 846, 959
SatI	GCNGC	2 cut(s)	351, 656
Sau3AI	GATC	5 cut(s)	18, 43, 69, 73, 799
Sau96I	GGNCC	1 cut(s)	665
SchI	GAGTC	1 cut(s)	122
ScrFI	CCNGG	3 cut(s)	96, 341, 672
SduI	GDGCHC	1 cut(s)	246
SexAI	ACCWGGT	1 cut(s)	339
SfaNI	GCATC	2 cut(s)	286, 868
SfuI	TTCGAA	1 cut(s)	580
SinI	GGWCC	1 cut(s)	665
SmlI	CTYRAG	1 cut(s)	635
SmoI	CTYRAG	1 cut(s)	635
SphI	GCATGC	1 cut(s)	173
Sse9I	AATT	3 cut(s)	254, 521, 686
SsiI	CCGC	3 cut(s)	186, 218, 860
SspMI	CTAG	5 cut(s)	174, 183, 629, 1007, 1030
StyD4I	CCNGG	3 cut(s)	94, 339, 670
StyI	CCWWGG	1 cut(s)	379
TaaI	ACNGT	2 cut(s)	241, 403
TaiI	ACGT	1 cut(s)	487
TaqI	TCGA	2 cut(s)	72, 580
TasI	AATT	3 cut(s)	254, 521, 686
TfiI	GAWTC	1 cut(s)	157
Tru1I	TTAA	7 cut(s)	321, 468, 510, 636, 753, 846, 959
Tru9I	TTAA	7 cut(s)	321, 468, 510, 636, 753, 846, 959
TscAI	CASTG	2 cut(s)	721, 1020
TseFI	GTSAC	3 cut(s)	22, 188, 967
TseI	GCWGC	2 cut(s)	350, 655
Tsp45I	GTSAC	3 cut(s)	22, 188, 967
TspDTI	ATGAA	4 cut(s)	693, 723, 849, 877
TspRI	CASTG	2 cut(s)	721, 1020
Van91I	CCANNNNNTGG	1 cut(s)	346
Vha464I	CTTAAG	1 cut(s)	635
VpaK11BI	GGWCC	1 cut(s)	665
XapI	RAATTY	1 cut(s)	521
XceI	RCATGY	5 cut(s)	173, 617, 644, 695, 992
XcmI	CCANNNNNNNNNTGG	1 cut(s)	945
XspI	CTAG	5 cut(s)	174, 183, 629, 1007, 1030

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