Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0006001

Physical Location & Seq

Genomic Coordinates Forward (+)

63474227 .. 63477244

Gene Structure 3018 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG430100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1152 bp

ATGCACAGAAGAAGGCACAAGGTGCCGTGGAAGTTGCTGAAGCGGGAAATACAGGATCAGGTGAAGAAGAGGGTGTTTGTGTGCCCGGAGCCGAGCTGCCTCCACCACGACCCTTGCCATGCGCTCGGCGATCTAGTGGGAATCAAGAAGCACTTCCGGCGAAAGCACAGCAACCACAAGCAATGGGTGTGCGACAAGTGCTCCAAAGGTTACGCCGTACAATCCGATTACAAGGCCCATCTCAAAACCTGTGGCACCAGAGGACATTCCTGCGACTGTGGCCGTGTGTTTTCCAGAGTGGAGAGTTTCATTGAGCACCAAGATACTTGCAGCGTGCGACATGTTGTCCGGCCAGAATTGCAGGCACTTCAGCCGGCGGCGGCCTGCTCATCACGAACAGCGTCGAGCACCAGCCCCTCCAGCGATGGCCATTTCAGCATTAATAATAACAACAATGCAGCTCCTCCATTGCCCGGATTACCAGTAATGCCAAAGCCAAATGACCAACCTGTTGTGTTTATAAGCTCTCATGAGGGGCATGATGGTAATCCTTCCACTTCTAACCACCAACACCAACAGCCACGAGAACAAGTGCTGGAGCTTAAACTCCTTCCATCGTCGGACACACAAACCTCCCCTCGAAACGAAGACGAAAACTATGCAACGCATTTGAAGCTTTCCATAGGCGGCTCATCACGCGGTGGTGATCAAAAGAATGATTCGCCACGAAGCTCATCAAGAGAAATGAACACAAACATTGGTTTTGGTGGTAGAGCAAGTCGGGAAGTGGCGAGGCTGAAAGACTTTGCCTCCGAGGAGTTGAAGTTGGCCATGGCGGAAAAGGCCTACGCCGAAGACGCTAGAAGAGAAGCCAAGCGGCAAATAGAGATGGCGGAGCTGGAGTTCGCAAACGCAAAGAGGATCAGGCAACAAGCGCAGGCGGAGCTTCAAAAGGCTCAGCTACTAAAGGAGCAATCCACCAAGAAAATCAGCTCCGCCATTATGCAAATCACTTGTCCATCTTGCAAGCAACACTTCCATGCGAGTAATCCTAGTAATGCAGTCGGAGTGGGACCCTCCGTCGACGAGACGACCTCCCTCGGCATGAGTTACATGTCCTCCGCCACAACCGAAGGAGAAGGAGAACAATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0001067 GO:0003006 GO:0003674 GO:0003676 GO:0003677 GO:0003700 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006109 GO:0006355 GO:0007275 GO:0008150 GO:0009581 GO:0009582 GO:0009590 GO:0009605 GO:0009606 GO:0009628 GO:0009629 GO:0009630 GO:0009653 GO:0009791 GO:0009889 GO:0009891 GO:0009893 GO:0009908 GO:0009959 GO:0009965 GO:0010016 GO:0010031 GO:0010468 GO:0010556 GO:0010600 GO:0010601 GO:0010675 GO:0010817 GO:0019219 GO:0019222 GO:0022414 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0032350 GO:0032352 GO:0032501 GO:0032502 GO:0032879 GO:0032881 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043621 GO:0044212 GO:0044424 GO:0044464 GO:0046885 GO:0046886 GO:0046982 GO:0046983 GO:0048366 GO:0048367 GO:0048437 GO:0048444 GO:0048518 GO:0048522 GO:0048608 GO:0048731 GO:0048827 GO:0048856 GO:0050789 GO:0050794 GO:0050879 GO:0050896 GO:0051049 GO:0051171 GO:0051252 GO:0051606 GO:0060255 GO:0061458 GO:0065007 GO:0065008 GO:0080090 GO:0090354 GO:0090355 GO:0090567 GO:0090696 GO:0090697 GO:0090698 GO:0097159 GO:0099402 GO:0140110 GO:1901363 GO:1903506 GO:1905392 GO:2000012 GO:2000112 GO:2000904 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

zf-C2H2 zf-met

Protein Analysis

383

Amino Acids

42.5

Weight (kDa)

9.01

Isoelectric Point (pI)

69.11

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
C2H2-2nd_BIRD-IDD	PF22996	22 - 56	3.5e-18	BIRD-IDD transcription factor, second C2H2 zinc finger
C2CH-3rd_BIRD-IDD	PF22995	61 - 85	3.1e-14	BIRD-IDD transcription factor, third C2HC zinc 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: OG0006001)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G22260
fragaria_vesca	FvH4_4g35820 FvH4_4g35830 FvH4_4g35830
malus_domestica	MD16G1012700.v1.1
prunus_persica	Prupe.1G338600_v2.0.a1
pyrus_communis	pycom16g01190
rosa_chinensis	RchiOBHm_Chr4g0445351 RchiOBHm_Chr4g0445361
rosa_laevigata	RLG00000005745 RLG00000005746
rosa_multiflora	Rmu_sc0000050.1_g000007 Rmu_sc0000050.1_g000008 Rmu_sc0000050.1_g000009
rosa_roxburghii	Rroxscaffold_5G00385870 Rroxscaffold_5G00385880
rosa_rugosa	Rorug04G0361000
rosa_samantha	Rh4AG422000 Rh4AG422100 Rh4BG434000 Rh4BG434100 Rh4CG448900 Rh4CG449000 Rh4DG430000 Rh4DG430100
rosa_wichuraiana	Rw4G036200 Rw4G036210

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	521
AccB1I	GGYRCC	2 cut(s)	22, 254
AccI	GTMKAC	1 cut(s)	1083
AccII	CGCG	1 cut(s)	699
AclWI	GGATC	2 cut(s)	63, 929
AcoI	YGGCCR	4 cut(s)	280, 350, 427, 828
AcuI	CTGAAG	2 cut(s)	59, 353
AdeI	CACNNNGTG	2 cut(s)	22, 701
AfaI	GTAC	1 cut(s)	219
AfiI	CCNNNNNNNGG	1 cut(s)	473
AflIII	ACRYGT	2 cut(s)	340, 1113
AgsI	TTSAA	3 cut(s)	673, 823, 950
AhdI	GACNNNNNGTC	2 cut(s)	344, 1079
AloI	GAACNNNNNNTCC	2 cut(s)	887, 919
Alw21I	GWGCWC	3 cut(s)	203, 318, 410
Alw26I	GTCTC	1 cut(s)	1082
AlwI	GGATC	2 cut(s)	63, 929
AoxI	GGCC	7 cut(s)	234, 280, 350, 381, 427, 828, 843
ApeKI	GCWGC	3 cut(s)	96, 330, 458
ArsI	GACNNNNNNTTYG	2 cut(s)	1000, 1032
AseI	ATTAAT	1 cut(s)	441
Asp700I	GAANNNNTTC	1 cut(s)	152
AspLEI	GCGC	2 cut(s)	124, 937
AspS9I	GGNCC	2 cut(s)	235, 1073
AsuC2I	CCSGG	2 cut(s)	86, 474
AsuHPI	GGTGA	2 cut(s)	73, 716
AvaII	GGWCC	1 cut(s)	1073
BaeGI	GKGCMC	1 cut(s)	86
BalI	TGGCCA	2 cut(s)	429, 830
BanI	GGYRCC	2 cut(s)	22, 254
BauI	CACGAG	1 cut(s)	582
BbsI	GAAGAC	2 cut(s)	654, 861
Bbv12I	GWGCWC	3 cut(s)	203, 318, 410
BbvI	GCAGC	3 cut(s)	83, 342, 470
BccI	CCATC	6 cut(s)	246, 419, 536, 622, 883, 1027
BceAI	ACGGC	3 cut(s)	10, 200, 267
BcgI	CGANNNNNNTGC	2 cut(s)	641, 675
BclI	TGATCA	1 cut(s)	706
BcnI	CCSGG	2 cut(s)	86, 474
BcoDI	GTCTC	1 cut(s)	1082
BfaI	CTAG	3 cut(s)	134, 861, 1053
BisI	GCNGC	7 cut(s)	97, 331, 378, 381, 459, 688, 878
BlpI	GCTNAGC	1 cut(s)	957
BlsI	GCNGC	7 cut(s)	98, 332, 379, 382, 460, 689, 879
Bme1390I	CCNGG	2 cut(s)	86, 474
Bme18I	GGWCC	1 cut(s)	1073
BmeRI	GACNNNNNGTC	2 cut(s)	344, 1079
BmgT120I	GGNCC	2 cut(s)	235, 1073
BmiI	GGNNCC	5 cut(s)	24, 90, 256, 1074, 1075
BmrFI	CCNGG	2 cut(s)	86, 474
BpiI	GAAGAC	2 cut(s)	654, 861
BplI	GAGNNNNNCTC	2 cut(s)	1079, 1111
BpmI	CTGGAG	3 cut(s)	403, 617, 920
Bpu1102I	GCTNAGC	1 cut(s)	957
BpuMI	CCSGG	2 cut(s)	86, 474
BsaBI	GATNNNNATC	1 cut(s)	546
BsaJI	CCNNGG	4 cut(s)	26, 813, 831, 1099
Bsc4I	CCNNNNNNNGG	1 cut(s)	473
Bse118I	RCCGGY	1 cut(s)	373
Bse1I	ACTGG	1 cut(s)	482
Bse3DI	GCAATG	2 cut(s)	188, 467
Bse8I	GATNNNNATC	1 cut(s)	546
BseDI	CCNNGG	4 cut(s)	26, 813, 831, 1099
BseJI	GATNNNNATC	1 cut(s)	546
BseLI	CCNNNNNNNGG	1 cut(s)	473
BseMI	GCAATG	2 cut(s)	188, 467
BseMII	CTCAG	1 cut(s)	971
BseNI	ACTGG	1 cut(s)	482
BseRI	GAGGAG	2 cut(s)	453, 830
BseSI	GKGCMC	1 cut(s)	86
BseXI	GCAGC	3 cut(s)	83, 342, 470
Bsh1236I	CGCG	1 cut(s)	699
BshFI	GGCC	7 cut(s)	236, 282, 352, 383, 429, 830, 845
BshNI	GGYRCC	2 cut(s)	22, 254
BsiHKAI	GWGCWC	3 cut(s)	203, 318, 410
BsiSI	CCGG	5 cut(s)	86, 157, 349, 374, 474
BslFI	GGGAC	1 cut(s)	1086
BslI	CCNNNNNNNGG	1 cut(s)	473
BsmAI	GTCTC	1 cut(s)	1082
BsmBI	CGTCTC	1 cut(s)	1082
BsmFI	GGGAC	1 cut(s)	1086
BsnI	GGCC	7 cut(s)	236, 282, 352, 383, 429, 830, 845
Bsp1286I	GDGCHC	4 cut(s)	86, 203, 318, 410
Bsp143I	GATC	4 cut(s)	55, 130, 706, 921
Bsp1720I	GCTNAGC	1 cut(s)	957
Bsp19I	CCATGG	1 cut(s)	831
BspANI	GGCC	7 cut(s)	236, 282, 352, 383, 429, 830, 845
BspCNI	CTCAG	1 cut(s)	970
BspFNI	CGCG	1 cut(s)	699
BspHI	TCATGA	1 cut(s)	529
BspLI	GGNNCC	5 cut(s)	24, 90, 256, 1074, 1075
BspPI	GGATC	2 cut(s)	63, 929
BspT107I	GGYRCC	2 cut(s)	22, 254
BsrDI	GCAATG	2 cut(s)	188, 467
BsrFI	RCCGGY	1 cut(s)	373
BsrI	ACTGG	1 cut(s)	482
BssAI	RCCGGY	1 cut(s)	373
BssECI	CCNNGG	4 cut(s)	26, 813, 831, 1099
BssMI	GATC	4 cut(s)	55, 130, 706, 921
BssSI	CACGAG	1 cut(s)	582
BssT1I	CCWWGG	1 cut(s)	831
Bst2BI	CACGAG	1 cut(s)	582
Bst4CI	ACNGT	1 cut(s)	278
Bst6I	CTCTTC	2 cut(s)	62, 859
BstAPI	GCANNNNNTGC	1 cut(s)	22
BstC8I	GCNNGC	6 cut(s)	335, 363, 375, 385, 939, 1028
BstDEI	CTNAG	1 cut(s)	957
BstDSI	CCRYGG	2 cut(s)	26, 831
BstFNI	CGCG	1 cut(s)	699
BstHHI	GCGC	2 cut(s)	124, 937
BstKTI	GATC	4 cut(s)	58, 133, 709, 924
BstMAI	GTCTC	1 cut(s)	1082
BstMBI	GATC	4 cut(s)	55, 130, 706, 921
BstNSI	RCATGY	2 cut(s)	344, 1117
BstSCI	CCNGG	2 cut(s)	84, 472
BstSLI	GKGCMC	1 cut(s)	86
BstUI	CGCG	1 cut(s)	699
BstV1I	GCAGC	3 cut(s)	83, 342, 470
BstV2I	GAAGAC	2 cut(s)	654, 861
BsuRI	GGCC	7 cut(s)	236, 282, 352, 383, 429, 830, 845
BtgI	CCRYGG	2 cut(s)	26, 831
BtgZI	GCGATG	1 cut(s)	438
Cac8I	GCNNGC	6 cut(s)	335, 363, 375, 385, 939, 1028
CciI	TCATGA	1 cut(s)	529
CfoI	GCGC	2 cut(s)	124, 937
Cfr10I	RCCGGY	1 cut(s)	373
Cfr13I	GGNCC	2 cut(s)	235, 1073
CseI	GACGC	2 cut(s)	390, 866
Csp6I	GTAC	1 cut(s)	218
CspCI	CAANNNNNGTGG	4 cut(s)	95, 130, 232, 267
CviAII	CATG	8 cut(s)	119, 341, 530, 539, 832, 1040, 1105, 1114
CviQI	GTAC	1 cut(s)	218
DdeI	CTNAG	1 cut(s)	957
DpnI	GATC	4 cut(s)	57, 132, 708, 923
DpnII	GATC	4 cut(s)	55, 130, 706, 921
DraIII	CACNNNGTG	2 cut(s)	22, 701
DriI	GACNNNNNGTC	2 cut(s)	344, 1079
EaeI	YGGCCR	4 cut(s)	280, 350, 427, 828
Eam1104I	CTCTTC	2 cut(s)	62, 859
Eam1105I	GACNNNNNGTC	2 cut(s)	344, 1079
EarI	CTCTTC	2 cut(s)	62, 859
EciI	GGCGGA	5 cut(s)	851, 908, 956, 985, 1111
Eco130I	CCWWGG	1 cut(s)	831
Eco147I	AGGCCT	1 cut(s)	845
Eco47I	GGWCC	1 cut(s)	1073
Eco57I	CTGAAG	2 cut(s)	59, 353
EcoO109I	RGGNCCY	1 cut(s)	1073
EcoT14I	CCWWGG	1 cut(s)	831
ErhI	CCWWGG	1 cut(s)	831
Esp3I	CGTCTC	1 cut(s)	1082
FaeI	CATG	8 cut(s)	122, 344, 533, 542, 835, 1043, 1108, 1117
FalI	AAGNNNNNCTT	4 cut(s)	137, 169, 1019, 1051
FaqI	GGGAC	1 cut(s)	1086
FatI	CATG	8 cut(s)	118, 340, 529, 538, 831, 1039, 1104, 1113
FauI	CCCGC	1 cut(s)	36
FbaI	TGATCA	1 cut(s)	706
FblI	GTMKAC	1 cut(s)	1083
Fnu4HI	GCNGC	7 cut(s)	97, 331, 378, 381, 459, 688, 878
Fsp4HI	GCNGC	7 cut(s)	97, 331, 378, 381, 459, 688, 878
FspBI	CTAG	3 cut(s)	134, 861, 1053
GlaI	GCGC	2 cut(s)	123, 936
GluI	GCNGC	7 cut(s)	97, 331, 378, 381, 459, 688, 878
GsuI	CTGGAG	3 cut(s)	403, 617, 920
HaeIII	GGCC	7 cut(s)	236, 282, 352, 383, 429, 830, 845
HapII	CCGG	5 cut(s)	86, 157, 349, 374, 474
HgaI	GACGC	2 cut(s)	390, 866
HhaI	GCGC	2 cut(s)	124, 937
Hin1II	CATG	8 cut(s)	122, 344, 533, 542, 835, 1043, 1108, 1117
Hin6I	GCGC	2 cut(s)	122, 935
HinP1I	GCGC	2 cut(s)	122, 935
HincII	GTYRAC	1 cut(s)	1084
HindII	GTYRAC	1 cut(s)	1084
HindIII	AAGCTT	1 cut(s)	674
HinfI	GANTC	2 cut(s)	141, 719
HpaII	CCGG	5 cut(s)	86, 157, 349, 374, 474
HphI	GGTGA	2 cut(s)	73, 716
Hpy166II	GTNNAC	1 cut(s)	1084
Hpy188I	TCNGA	4 cut(s)	226, 622, 814, 1067
Hpy188III	TCNNGA	6 cut(s)	145, 294, 393, 530, 738, 782
Hpy8I	GTNNAC	1 cut(s)	1084
Hpy99I	CGWCG	4 cut(s)	406, 622, 1085, 1088
HpyAV	CCTTC	5 cut(s)	6, 561, 620, 1127, 1133
HpyCH4III	ACNGT	1 cut(s)	278
HpyCH4V	TGCA	8 cut(s)	4, 330, 361, 458, 662, 1006, 1026, 1061
HpyF3I	CTNAG	1 cut(s)	957
Hsp92II	CATG	8 cut(s)	122, 344, 533, 542, 835, 1043, 1108, 1117
HspAI	GCGC	2 cut(s)	122, 935
KflI	GGGWCCC	1 cut(s)	1073
KroI	GCCGGC	1 cut(s)	373
KroNI	GCCGGC	1 cut(s)	375
Ksp22I	TGATCA	1 cut(s)	706
Kzo9I	GATC	4 cut(s)	55, 130, 706, 921
LmnI	GCTCC	8 cut(s)	88, 206, 466, 598, 895, 943, 970, 998
Lsp1109I	GCAGC	3 cut(s)	83, 342, 470
MaeI	CTAG	3 cut(s)	134, 861, 1053
MaeIII	GTNAC	2 cut(s)	209, 1109
MalI	GATC	4 cut(s)	57, 132, 708, 923
MboI	GATC	4 cut(s)	55, 130, 706, 921
MboII	GAAGA	6 cut(s)	21, 76, 79, 659, 866, 876
MhlI	GDGCHC	4 cut(s)	86, 203, 318, 410
MlsI	TGGCCA	2 cut(s)	429, 830
MluCI	AATT	1 cut(s)	356
MluNI	TGGCCA	2 cut(s)	429, 830
MmeI	TCCRAC	2 cut(s)	600, 1045
Mox20I	TGGCCA	2 cut(s)	429, 830
MroNI	GCCGGC	1 cut(s)	373
MroXI	GAANNNNTTC	1 cut(s)	152
MscI	TGGCCA	2 cut(s)	429, 830
MseI	TTAA	2 cut(s)	441, 603
MslI	CAYNNNNRTG	1 cut(s)	1038
Msp20I	TGGCCA	2 cut(s)	429, 830
MspI	CCGG	5 cut(s)	86, 157, 349, 374, 474
MspR9I	CCNGG	2 cut(s)	86, 474
MvnI	CGCG	1 cut(s)	699
NaeI	GCCGGC	1 cut(s)	375
NciI	CCSGG	2 cut(s)	86, 474
NcoI	CCATGG	1 cut(s)	831
NdeII	GATC	4 cut(s)	55, 130, 706, 921
NgoMIV	GCCGGC	1 cut(s)	373
NlaIII	CATG	8 cut(s)	122, 344, 533, 542, 835, 1043, 1108, 1117
NlaIV	GGNNCC	5 cut(s)	24, 90, 256, 1074, 1075
NmeAIII	GCCGAG	3 cut(s)	105, 117, 1080
NspI	RCATGY	2 cut(s)	344, 1117
PagI	TCATGA	1 cut(s)	529
PceI	AGGCCT	1 cut(s)	845
PciI	ACATGT	2 cut(s)	340, 1113
PdiI	GCCGGC	1 cut(s)	375
PdmI	GAANNNNTTC	1 cut(s)	152
PfeI	GAWTC	2 cut(s)	141, 719
PkrI	GCNGC	7 cut(s)	98, 332, 379, 382, 460, 689, 879
PpuMI	RGGWCCY	1 cut(s)	1073
PscI	ACATGT	2 cut(s)	340, 1113
PshBI	ATTAAT	1 cut(s)	441
PsiI	TTATAA	1 cut(s)	521
Psp5II	RGGWCCY	1 cut(s)	1073
PspN4I	GGNNCC	5 cut(s)	24, 90, 256, 1074, 1075
PspPI	GGNCC	2 cut(s)	235, 1073
PspPPI	RGGWCCY	1 cut(s)	1073
RsaI	GTAC	1 cut(s)	219
RsaNI	GTAC	1 cut(s)	218
RseI	CAYNNNNRTG	1 cut(s)	1038
SalI	GTCGAC	1 cut(s)	1082
SaqAI	TTAA	2 cut(s)	441, 603
SatI	GCNGC	7 cut(s)	97, 331, 378, 381, 459, 688, 878
Sau3AI	GATC	4 cut(s)	55, 130, 706, 921
Sau96I	GGNCC	2 cut(s)	235, 1073
ScrFI	CCNGG	2 cut(s)	86, 474
SduI	GDGCHC	4 cut(s)	86, 203, 318, 410
SgrDI	CGTCGACG	1 cut(s)	1082
SinI	GGWCC	1 cut(s)	1073
SmiMI	CAYNNNNRTG	1 cut(s)	1038
Sse9I	AATT	1 cut(s)	356
SseBI	AGGCCT	1 cut(s)	845
SspMI	CTAG	3 cut(s)	134, 861, 1053
StuI	AGGCCT	1 cut(s)	845
StyD4I	CCNGG	2 cut(s)	84, 472
StyI	CCWWGG	1 cut(s)	831
TaaI	ACNGT	1 cut(s)	278
TaqI	TCGA	3 cut(s)	404, 640, 1083
TasI	AATT	1 cut(s)	356
TauI	GCSGC	4 cut(s)	380, 383, 690, 880
TfiI	GAWTC	2 cut(s)	141, 719
Tru1I	TTAA	2 cut(s)	441, 603
Tru9I	TTAA	2 cut(s)	441, 603
TseI	GCWGC	3 cut(s)	96, 330, 458
TspDTI	ATGAA	2 cut(s)	298, 761
TspGWI	ACGGA	1 cut(s)	1069
VpaK11BI	GGWCC	1 cut(s)	1073
VspI	ATTAAT	1 cut(s)	441
XceI	RCATGY	2 cut(s)	344, 1117
XmiI	GTMKAC	1 cut(s)	1083
XmnI	GAANNNNTTC	1 cut(s)	152
XspI	CTAG	3 cut(s)	134, 861, 1053

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