Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2D

Orthogroup ID

OG0001286

Physical Location & Seq

Genomic Coordinates Forward (+)

49287076 .. 49295192

Gene Structure 8117 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2DG352000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1287 bp

ATGGAATGCCTACACAGGTTTTGCAGGGAATGCATCGACAAGTCAATGCGAATGGGGAACAATGAGTGCCCTGCTTGCCGCACACACTGTGCCAGTCGACGGTCTTTGAGAGATGATCCAAATTATGATGCCATAATTGCAACATTATATCCAGATATTGAGAAATATGAGAAGGAGGAATTGGCTTTCCATGAAGAGGAGAGGACTCGAAATGAGCAGATACAAGCATCAATTGCCCAAATATTCCAACGACAATCAGAAGCTTTAATCAAGAGACGCTCACTTGGCAAAGATACCCAAGATGCATATAATATGAGATCCCTGCGCAATAATCGGAGTGGTCTCCGAAGGAGAAGAAACTCTCAAGCCACTGAACTCCAAGGGTTTGAAGACAATGAGGATGAAAATGACACTAGTAACATGGGCACAAAATCGCCTTCAGCTGAAGAGAGACATACTGAAGTGAGGCCAAGACGGCTAAGAAGACGGACAGGATTTCGATCATCTCAGCCTTCATCATCTGTGACCAATTCAAATGGAGGATGCACTGAAAATGATGTAGAAGTGAGCCGAGAGAACAGGGGAATTTCACCGGGTCTTGTGTGGAGCTCTGAAATGCTTGCTTGGGGCCGGGGTGGTGCTCGGAGTCACACTCGGCATGGCATTGCAAGCGGTTGCAGCAATAAGAGTTCTCGAAGCACTCGCTTATCAAAGTTGGTTGATTACCTTCGGAACCTCAAGGAAAACAATGATGAGTTAGATGTTCATCTCATGCTTATTTCTTTGGATAAAAGATGCACACCAAACTTGCAGCAGCCTCACCTTTGCTGTAGGCCGAGTTTGTCAGTCAAGCACCTTTGTGAATATGTTGCTCGTCAAACACCTTTGCAAGCCGAAGAAGTTGAGTTGTTCTCAGTTAAAGGACACCACAATTCCAATGACGAAAAATTGACTGATCACCCATCAGCGTTAATGAATGATCTGGATTCAGTTCCCCTTTTGGTTGATCCATGCAGATATGATTTGCAAATTCTGCAAGCAGAAGAAACTTTGGCAGGGATTAAAGCCAATTGCACTTCCAGTAGGGACCGCTTGGTGAGTATCCATAGAAAAGGTCTAGTGCATGGGTCTATATGTTTGTTTATCTTTACTTTTTTGTATGCTAAAGACTTTCAGTTAGAGCTTTATAGAAAATTCAATCGACCAAATAAAATTTTTTATGGTTGGAGTTTTGTCTCTGATTTGATAGAGGGAATGTTGTGGCATAACATTATGCTGTGGATTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000151 GO:0000152 GO:0001709 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006355 GO:0008150 GO:0009888 GO:0009889 GO:0009890 GO:0009892 GO:0009987 GO:0010073 GO:0010074 GO:0010076 GO:0010077 GO:0010468 GO:0010492 GO:0010556 GO:0010558 GO:0010605 GO:0010629 GO:0019219 GO:0019222 GO:0019827 GO:0030154 GO:0031323 GO:0031324 GO:0031326 GO:0031327 GO:0031519 GO:0032501 GO:0032502 GO:0032991 GO:0035102 GO:0040029 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0045165 GO:0045814 GO:0045892 GO:0045934 GO:0048507 GO:0048519 GO:0048523 GO:0048856 GO:0048869 GO:0050789 GO:0050794 GO:0051171 GO:0051172 GO:0051252 GO:0051253 GO:0060255 GO:0065007 GO:0080090 GO:0098727 GO:1902494 GO:1902679 GO:1903506 GO:1903507 GO:1990234 GO:2000112 GO:2000113 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

zf-C3HC4_2

Protein Analysis

428

Amino Acids

49.31

Weight (kDa)

8.31

Isoelectric Point (pI)

70.67

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-C3HC4	PF00097	1 - 26	7.5e-06	Zinc finger, C3HC4 type (RING finger)
zf-C3HC4_2	PF13923	2 - 26	2.2e-06	Zinc finger, C3HC4 type (RING finger)

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: OG0001286)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G44280 AT5G44280 AT5G44280
fragaria_vesca	FvH4_3g08840 FvH4_3g08840 FvH4_3g08840 FvH4_3g08840 FvH4_6g26540 FvH4_6g26540 FvH4_6g26540 FvH4_6g26540 FvH4_6g26540 FvH4_6g26540 FvH4_6g26540 FvH4_6g26540
malus_domestica	MD05G1312000.v1.1 MD09G1244000.v1.1 MD10G1291500.v1.1 MD17G1235900.v1.1
prunus_persica	Prupe.3G139900_v2.0.a1 Prupe.3G139900_v2.0.a1 Prupe.3G139900_v2.0.a1 Prupe.3G139900_v2.0.a1 Prupe.3G139900_v2.0.a1 Prupe.4G050700_v2.0.a1 Prupe.4G050700_v2.0.a1 Prupe.4G050700_v2.0.a1
pyrus_communis	pycom05g28800 pycom09g16250 pycom10g24370
rosa_chinensis	RchiOBHm_Chr2g0127611 RchiOBHm_Chr5g0008911
rosa_laevigata	RLG00000018950 RLG00000031615
rosa_multiflora	Rmu_co8349609.1_g000001 Rmu_sc0004677.1_g000011 Rmu_ssc0000200.1_g000019
rosa_roxburghii	Rroxscaffold_1G00067100 Rroxscaffold_1G00067720 Rroxscaffold_2G00116570
rosa_rugosa	Rorug02G0272500 Rorug02G0272500 Rorug02G0272500 Rorug02G0272500 Rorug04G0440100
rosa_samantha	Rh2AG324500 Rh2BG333800 Rh2CG312000 Rh2DG352000 Rh5AG068800 Rh5BG065500 Rh5CG076700 Rh5DG064500
rosa_wichuraiana	Rw2G026350 Rw5G006440

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	326
AccI	GTMKAC	1 cut(s)	97
AciI	CCGC	3 cut(s)	79, 672, 1090
AclWI	GGATC	3 cut(s)	110, 312, 1001
AcsI	RAATTY	4 cut(s)	585, 1029, 1193, 1212
AcuI	CTGAAG	3 cut(s)	423, 465, 480
AdeI	CACNNNGTG	1 cut(s)	89
AfiI	CCNNNNNNNGG	2 cut(s)	99, 196
AgsI	TTSAA	3 cut(s)	389, 534, 1198
AhlI	ACTAGT	1 cut(s)	413
AjuI	GAANNNNNNNTTGG	2 cut(s)	164, 196
AleI	CACNNNNGTG	1 cut(s)	858
AluBI	AGCT	4 cut(s)	263, 443, 609, 1183
AluI	AGCT	4 cut(s)	263, 443, 609, 1183
Alw21I	GWGCWC	2 cut(s)	611, 643
Alw26I	GTCTC	4 cut(s)	268, 347, 445, 1240
AlwI	GGATC	3 cut(s)	110, 312, 1001
AoxI	GGCC	3 cut(s)	467, 628, 833
ApeKI	GCWGC	3 cut(s)	678, 811, 814
ApoI	RAATTY	4 cut(s)	585, 1029, 1193, 1212
AspLEI	GCGC	1 cut(s)	327
AspS9I	GGNCC	2 cut(s)	628, 1087
AsuC2I	CCSGG	2 cut(s)	594, 632
AsuHPI	GGTGA	4 cut(s)	582, 812, 950, 1108
AvaII	GGWCC	1 cut(s)	1087
BaeGI	GKGCMC	2 cut(s)	71, 428
BanII	GRGCYC	1 cut(s)	611
BbsI	GAAGAC	2 cut(s)	396, 490
Bbv12I	GWGCWC	2 cut(s)	611, 643
BbvI	GCAGC	3 cut(s)	690, 823, 826
BccI	CCATC	1 cut(s)	970
BceAI	ACGGC	1 cut(s)	491
BciVI	GTATCC	1 cut(s)	1112
BclI	TGATCA	1 cut(s)	955
BcnI	CCSGG	2 cut(s)	594, 632
BcoDI	GTCTC	4 cut(s)	268, 347, 445, 1240
BcuI	ACTAGT	1 cut(s)	413
BfaI	CTAG	2 cut(s)	414, 1118
BfmI	CTRYAG	1 cut(s)	829
BfuI	GTATCC	1 cut(s)	1112
BglI	GCCNNNNNGGC	1 cut(s)	475
BisI	GCNGC	4 cut(s)	79, 679, 812, 815
BlsI	GCNGC	4 cut(s)	80, 680, 813, 816
Bme1390I	CCNGG	2 cut(s)	594, 632
Bme18I	GGWCC	1 cut(s)	1087
BmgT120I	GGNCC	2 cut(s)	628, 1087
BmiI	GGNNCC	3 cut(s)	629, 734, 1088
BmrFI	CCNGG	2 cut(s)	594, 632
BmsI	GCATC	6 cut(s)	42, 118, 236, 292, 533, 785
BpiI	GAAGAC	2 cut(s)	396, 490
BplI	GAGNNNNNCTC	4 cut(s)	637, 669, 896, 928
BpuEI	CTTGAG	2 cut(s)	348, 722
BpuMI	CCSGG	2 cut(s)	594, 632
BsaBI	GATNNNNATC	2 cut(s)	499, 765
BsaI	GGTCTC	1 cut(s)	347
BsaJI	CCNNGG	2 cut(s)	379, 631
Bsc4I	CCNNNNNNNGG	2 cut(s)	99, 196
Bse1I	ACTGG	2 cut(s)	93, 1080
Bse3DI	GCAATG	1 cut(s)	663
Bse8I	GATNNNNATC	2 cut(s)	499, 765
BseDI	CCNNGG	2 cut(s)	379, 631
BseGI	GGATG	2 cut(s)	406, 548
BseJI	GATNNNNATC	2 cut(s)	499, 765
BseLI	CCNNNNNNNGG	2 cut(s)	99, 196
BseMI	GCAATG	1 cut(s)	663
BseMII	CTCAG	2 cut(s)	521, 927
BseNI	ACTGG	2 cut(s)	93, 1080
BseRI	GAGGAG	1 cut(s)	212
BseSI	GKGCMC	2 cut(s)	71, 428
BseXI	GCAGC	3 cut(s)	690, 823, 826
BshFI	GGCC	3 cut(s)	469, 630, 835
BsiHKAI	GWGCWC	2 cut(s)	611, 643
BsiSI	CCGG	2 cut(s)	593, 631
BslFI	GGGAC	1 cut(s)	1100
BslI	CCNNNNNNNGG	2 cut(s)	99, 196
BsmAI	GTCTC	4 cut(s)	268, 347, 445, 1240
BsmBI	CGTCTC	1 cut(s)	268
BsmFI	GGGAC	1 cut(s)	1100
BsmI	GAATGC	2 cut(s)	11, 35
BsnI	GGCC	3 cut(s)	469, 630, 835
Bso31I	GGTCTC	1 cut(s)	347
Bsp1286I	GDGCHC	4 cut(s)	71, 428, 611, 643
Bsp143I	GATC	6 cut(s)	115, 317, 500, 955, 979, 1006
BspACI	CCGC	3 cut(s)	79, 672, 1090
BspANI	GGCC	3 cut(s)	469, 630, 835
BspCNI	CTCAG	2 cut(s)	520, 926
BspLI	GGNNCC	3 cut(s)	629, 734, 1088
BspPI	GGATC	3 cut(s)	110, 312, 1001
BspTNI	GGTCTC	1 cut(s)	347
BsrDI	GCAATG	1 cut(s)	663
BsrI	ACTGG	2 cut(s)	93, 1080
BssECI	CCNNGG	2 cut(s)	379, 631
BssMI	GATC	6 cut(s)	115, 317, 500, 955, 979, 1006
BssT1I	CCWWGG	1 cut(s)	379
Bst4CI	ACNGT	2 cut(s)	89, 102
Bst6I	CTCTTC	2 cut(s)	189, 441
BstAPI	GCANNNNNTGC	3 cut(s)	30, 233, 1033
BstC8I	GCNNGC	5 cut(s)	76, 621, 670, 891, 1038
BstDEI	CTNAG	3 cut(s)	479, 507, 913
BstF5I	GGATG	2 cut(s)	406, 548
BstHHI	GCGC	1 cut(s)	327
BstKTI	GATC	6 cut(s)	118, 320, 503, 958, 982, 1009
BstMAI	GTCTC	4 cut(s)	268, 347, 445, 1240
BstMBI	GATC	6 cut(s)	115, 317, 500, 955, 979, 1006
BstMWI	GCNNNNNNNGC	9 cut(s)	30, 75, 137, 233, 285, 475, 669, 678, 1033
BstSCI	CCNGG	2 cut(s)	592, 630
BstSFI	CTRYAG	1 cut(s)	829
BstSLI	GKGCMC	2 cut(s)	71, 428
BstV1I	GCAGC	3 cut(s)	690, 823, 826
BstV2I	GAAGAC	2 cut(s)	396, 490
BstX2I	RGATCY	1 cut(s)	317
BstYI	RGATCY	1 cut(s)	317
BsuI	GTATCC	1 cut(s)	1112
BsuRI	GGCC	3 cut(s)	469, 630, 835
BtsCI	GGATG	2 cut(s)	406, 548
BtsIMutI	CAGTG	3 cut(s)	85, 369, 546
Cac8I	GCNNGC	5 cut(s)	76, 621, 670, 891, 1038
CfoI	GCGC	1 cut(s)	327
Cfr13I	GGNCC	2 cut(s)	628, 1087
CseI	GACGC	1 cut(s)	285
CviAII	CATG	6 cut(s)	191, 421, 659, 772, 1011, 1124
DdeI	CTNAG	3 cut(s)	479, 507, 913
DpnI	GATC	6 cut(s)	117, 319, 502, 957, 981, 1008
DpnII	GATC	6 cut(s)	115, 317, 500, 955, 979, 1006
DraIII	CACNNNGTG	1 cut(s)	89
Eam1104I	CTCTTC	2 cut(s)	189, 441
EarI	CTCTTC	2 cut(s)	189, 441
Ecl136II	GAGCTC	1 cut(s)	609
Eco130I	CCWWGG	1 cut(s)	379
Eco24I	GRGCYC	1 cut(s)	611
Eco31I	GGTCTC	1 cut(s)	347
Eco47I	GGWCC	1 cut(s)	1087
Eco53kI	GAGCTC	1 cut(s)	609
Eco57I	CTGAAG	3 cut(s)	423, 465, 480
EcoICRI	GAGCTC	1 cut(s)	609
EcoT14I	CCWWGG	1 cut(s)	379
EcoT22I	ATGCAT	2 cut(s)	35, 307
EcoT38I	GRGCYC	1 cut(s)	611
ErhI	CCWWGG	1 cut(s)	379
Esp3I	CGTCTC	1 cut(s)	268
FaeI	CATG	6 cut(s)	194, 424, 662, 775, 1014, 1127
FaqI	GGGAC	1 cut(s)	1100
FatI	CATG	6 cut(s)	190, 420, 658, 771, 1010, 1123
FbaI	TGATCA	1 cut(s)	955
FblI	GTMKAC	1 cut(s)	97
Fnu4HI	GCNGC	4 cut(s)	79, 679, 812, 815
FokI	GGATG	2 cut(s)	413, 555
FriOI	GRGCYC	1 cut(s)	611
Fsp4HI	GCNGC	4 cut(s)	79, 679, 812, 815
FspBI	CTAG	2 cut(s)	414, 1118
FspI	TGCGCA	1 cut(s)	326
GlaI	GCGC	1 cut(s)	326
GluI	GCNGC	4 cut(s)	79, 679, 812, 815
HaeIII	GGCC	3 cut(s)	469, 630, 835
HapII	CCGG	2 cut(s)	593, 631
HgaI	GACGC	1 cut(s)	285
HhaI	GCGC	1 cut(s)	327
Hin1II	CATG	6 cut(s)	194, 424, 662, 775, 1014, 1127
Hin6I	GCGC	1 cut(s)	325
HinP1I	GCGC	1 cut(s)	325
HincII	GTYRAC	1 cut(s)	98
HindII	GTYRAC	1 cut(s)	98
HindIII	AAGCTT	1 cut(s)	261
HinfI	GANTC	3 cut(s)	205, 646, 986
HpaII	CCGG	2 cut(s)	593, 631
HphI	GGTGA	4 cut(s)	582, 812, 950, 1108
Hpy166II	GTNNAC	1 cut(s)	98
Hpy188I	TCNGA	7 cut(s)	259, 336, 347, 613, 645, 732, 1240
Hpy188III	TCNNGA	4 cut(s)	152, 271, 693, 983
Hpy8I	GTNNAC	1 cut(s)	98
Hpy99I	CGWCG	1 cut(s)	102
HpyAV	CCTTC	5 cut(s)	166, 342, 447, 522, 737
HpyCH4III	ACNGT	2 cut(s)	89, 102
HpyF10VI	GCNNNNNNNGC	9 cut(s)	30, 75, 137, 233, 285, 475, 669, 678, 1033
HpyF3I	CTNAG	3 cut(s)	479, 507, 913
Hsp92II	CATG	6 cut(s)	194, 424, 662, 775, 1014, 1127
HspAI	GCGC	1 cut(s)	325
Ksp22I	TGATCA	1 cut(s)	955
Kzo9I	GATC	6 cut(s)	115, 317, 500, 955, 979, 1006
LmnI	GCTCC	1 cut(s)	606
Lsp1109I	GCAGC	3 cut(s)	690, 823, 826
LweI	GCATC	6 cut(s)	42, 118, 236, 292, 533, 785
MaeI	CTAG	2 cut(s)	414, 1118
MaeIII	GTNAC	3 cut(s)	416, 523, 647
MalI	GATC	6 cut(s)	117, 319, 502, 957, 981, 1008
MboI	GATC	6 cut(s)	115, 317, 500, 955, 979, 1006
MboII	GAAGA	7 cut(s)	206, 366, 401, 458, 495, 908, 1055
MfeI	CAATTG	2 cut(s)	231, 1069
MflI	RGATCY	1 cut(s)	317
MhlI	GDGCHC	4 cut(s)	71, 428, 611, 643
MlyI	GAGTC	2 cut(s)	199, 655
MmeI	TCCRAC	2 cut(s)	271, 1205
MnlI	CCTC	9 cut(s)	169, 190, 195, 391, 459, 533, 746, 828, 1243
Mph1103I	ATGCAT	2 cut(s)	35, 307
MseI	TTAA	4 cut(s)	266, 918, 971, 1062
MslI	CAYNNNNRTG	1 cut(s)	858
MspA1I	CMGCKG	1 cut(s)	443
MspI	CCGG	2 cut(s)	593, 631
MspR9I	CCNGG	2 cut(s)	594, 632
MunI	CAATTG	2 cut(s)	231, 1069
Mva1269I	GAATGC	2 cut(s)	11, 35
MwoI	GCNNNNNNNGC	9 cut(s)	30, 75, 137, 233, 285, 475, 669, 678, 1033
NciI	CCSGG	2 cut(s)	594, 632
NdeII	GATC	6 cut(s)	115, 317, 500, 955, 979, 1006
NlaIII	CATG	6 cut(s)	194, 424, 662, 775, 1014, 1127
NlaIV	GGNNCC	3 cut(s)	629, 734, 1088
NmeAIII	GCCGAG	3 cut(s)	596, 634, 861
NmuCI	GTSAC	2 cut(s)	523, 647
NsbI	TGCGCA	1 cut(s)	326
NsiI	ATGCAT	2 cut(s)	35, 307
OliI	CACNNNNGTG	1 cut(s)	858
PctI	GAATGC	2 cut(s)	11, 35
PfeI	GAWTC	1 cut(s)	986
PkrI	GCNGC	4 cut(s)	80, 680, 813, 816
PleI	GAGTC	2 cut(s)	199, 654
PpsI	GAGTC	2 cut(s)	199, 654
Psp124BI	GAGCTC	1 cut(s)	611
PspN4I	GGNNCC	3 cut(s)	629, 734, 1088
PspPI	GGNCC	2 cut(s)	628, 1087
PsuI	RGATCY	1 cut(s)	317
PvuII	CAGCTG	1 cut(s)	443
RseI	CAYNNNNRTG	1 cut(s)	858
SacI	GAGCTC	1 cut(s)	611
SalI	GTCGAC	1 cut(s)	96
SaqAI	TTAA	4 cut(s)	266, 918, 971, 1062
SatI	GCNGC	4 cut(s)	79, 679, 812, 815
Sau3AI	GATC	6 cut(s)	115, 317, 500, 955, 979, 1006
Sau96I	GGNCC	2 cut(s)	628, 1087
SchI	GAGTC	2 cut(s)	199, 655
ScrFI	CCNGG	2 cut(s)	594, 632
SduI	GDGCHC	4 cut(s)	71, 428, 611, 643
SfaNI	GCATC	6 cut(s)	42, 118, 236, 292, 533, 785
SfcI	CTRYAG	1 cut(s)	829
SinI	GGWCC	1 cut(s)	1087
SmiMI	CAYNNNNRTG	1 cut(s)	858
SmlI	CTYRAG	2 cut(s)	363, 737
SmoI	CTYRAG	2 cut(s)	363, 737
SpeI	ACTAGT	1 cut(s)	413
SsiI	CCGC	3 cut(s)	79, 672, 1090
SspI	AATATT	1 cut(s)	243
SspMI	CTAG	2 cut(s)	414, 1118
SstI	GAGCTC	1 cut(s)	611
StyD4I	CCNGG	2 cut(s)	592, 630
StyI	CCWWGG	1 cut(s)	379
TaaI	ACNGT	2 cut(s)	89, 102
TaqI	TCGA	6 cut(s)	36, 97, 208, 499, 694, 1201
TauI	GCSGC	1 cut(s)	81
TfiI	GAWTC	1 cut(s)	986
Tru1I	TTAA	4 cut(s)	266, 918, 971, 1062
Tru9I	TTAA	4 cut(s)	266, 918, 971, 1062
TscAI	CASTG	3 cut(s)	92, 376, 553
TseFI	GTSAC	2 cut(s)	523, 647
TseI	GCWGC	3 cut(s)	678, 811, 814
Tsp45I	GTSAC	2 cut(s)	523, 647
TspDTI	ATGAA	5 cut(s)	207, 417, 504, 755, 989
TspGWI	ACGGA	1 cut(s)	502
TspRI	CASTG	3 cut(s)	92, 376, 553
VpaK11BI	GGWCC	1 cut(s)	1087
XapI	RAATTY	4 cut(s)	585, 1029, 1193, 1212
XmiI	GTMKAC	1 cut(s)	97
XspI	CTAG	2 cut(s)	414, 1118
Zsp2I	ATGCAT	2 cut(s)	35, 307

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