Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0010103

Physical Location & Seq

Genomic Coordinates Forward (+)

224090 .. 229630

Gene Structure 5541 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG000800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1053 bp

ATGCCTGTAAAGACAGAACCGTGCAGATACTTTCAGCGTGGCAGCTGTCAGTATGGAGATAAGTGTAGATATCTTCATGTGACTCAGCAACAGCCAAAGTCGAATATCTTTGGTGGATTTGGGTCCCAATCTGGCTCAGATCAGCACCAAAAGTCCAATCCTTATGGTTTTGGTGTTCATAACAACTCTCAGTCAAAAGCGGGAACTGATAAGCCTTTCGAAAACAAATGGACTCGTTCCTCCCCCGCAACTGCTACTGCTACTCCTTCATCACGGAGATCTGATAACCAGCCCCAGACAACAAATCATGAGTGCACAAATCCCGAGTCTTGCAGAAGTATAATTAATGAAGATTTTGAGCGTGAGAGACCACTTTGGAAACTTACCTGCTATGGTCACTCAAGAAATTCTCCTTGTGATATTGTTGGTGATGTTAGTTACGAAGAATTGAGGGCACTGGCATATGATGATGCTAAGCGAGGGCTGAACTTTCCGTCAATAGTTGAAAGAGAACGAAATCTGGTTAATACCAAGTCTATTGAGTTTGAAAATCTTCGCAAGCCCCGTGCTGTTCCACTGAACTCTACTGTTAGCCAAAGCCCTTTCGCTTCAGCTACTGCAAATGCATTCTTGCAGACTCCTCAAAGTAGTGCTCCTCCTTCAGTATCGAGTTTCAGCCAGTTTGGTACATCACTCAACGTGGGATTTGGACAAAGGCCATCTGCACCAGCAAATAATGGTATTTTTCAGCCGAGCCTGTTCATGAATTCTAGCCATGCTTCAAGTGGATTTGGGACAAACAATATTCCATCTGCAAACGTTGGTTCACTTGCCAGCCAATCTCATAACAGTATACGCGGAAGTATTTTTACCCACAATGTAGGATTTGGCAACACTGATGTCATGAGACCTGACAGCAACCAAATATCTAGTTCAGCAGTGCCATCACAATTTCCTAGTGCTACAATTAGCCAGCCACTTATTGTTTCAGACGGACCTAGCTCTGCTTCCATTTCAAGTGGACAAGTAACTGCAGAAGCCCAGTCACTGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003677 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005635 GO:0005737 GO:0008150 GO:0009966 GO:0009968 GO:0010646 GO:0010648 GO:0012505 GO:0023051 GO:0023057 GO:0031967 GO:0031975 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043565 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0048519 GO:0048523 GO:0048583 GO:0048585 GO:0050789 GO:0050794 GO:0065007 GO:0097159 GO:1900457 GO:1900458 GO:1901363

KEGG Pathways

Metabolic & Signaling

ko03013 map03013

Pfam Domains

Protein Families

zf-CCCH

Protein Analysis

350

Amino Acids

37.81

Weight (kDa)

8.67

Isoelectric Point (pI)

63.56

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-CCCH	PF00642	4 - 27	1.4e-09	Zinc finger C-x8-C-x5-C-x3-H type (and similar)
zf-CCCH_4	PF18044	7 - 26	1.4e-08	CCCH-type zinc finger
zf_CCCH_4	PF18345	8 - 26	1.4e-07	Zinc finger domain

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: OG0010103)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G75340 AT1G75340 AT1G75340
fragaria_vesca	FvH4_4g00131
malus_domestica	MD04G1000600.v1.1
prunus_persica	Prupe.1G000600_v2.0.a1 Prupe.1G000600_v2.0.a1 Prupe.1G000600_v2.0.a1 Prupe.1G000600_v2.0.a1 Prupe.1G000600_v2.0.a1
rosa_chinensis	RchiOBHm_Chr4g0384751
rosa_laevigata	RLG00000010275
rosa_multiflora	Rmu_sc0001322.1_g000021
rosa_roxburghii	Rroxscaffold_5G00332810
rosa_rugosa	Rorug03G0297500
rosa_samantha	Rh4AG000900 Rh4BG000800 Rh4CG000700 Rh4DG000800
rosa_wichuraiana	Rw0G021990 Rw4G000800

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	395
AccI	GTMKAC	1 cut(s)	853
AccII	CGCG	1 cut(s)	858
AciI	CCGC	3 cut(s)	200, 246, 858
AclI	AACGTT	1 cut(s)	819
AcsI	RAATTY	2 cut(s)	406, 766
AcuI	CTGAAG	2 cut(s)	594, 645
AfaI	GTAC	1 cut(s)	688
AgsI	TTSAA	4 cut(s)	506, 548, 783, 1017
AluBI	AGCT	3 cut(s)	45, 614, 1002
AluI	AGCT	3 cut(s)	45, 614, 1002
Alw21I	GWGCWC	2 cut(s)	317, 655
Alw26I	GTCTC	2 cut(s)	361, 901
Alw44I	GTGCAC	1 cut(s)	313
AlwNI	CAGNNNCTG	2 cut(s)	617, 1048
Ama87I	CYCGRG	1 cut(s)	323
AoxI	GGCC	1 cut(s)	716
ApaLI	GTGCAC	1 cut(s)	313
ApeKI	GCWGC	1 cut(s)	42
ApoI	RAATTY	2 cut(s)	406, 766
ArsI	GACNNNNNNTTYG	2 cut(s)	311, 343
AseI	ATTAAT	1 cut(s)	345
Asp700I	GAANNNNTTC	1 cut(s)	552
AspS9I	GGNCC	2 cut(s)	123, 995
AsuHPI	GGTGA	1 cut(s)	440
AsuII	TTCGAA	1 cut(s)	219
AvaI	CYCGRG	1 cut(s)	323
AvaII	GGWCC	2 cut(s)	123, 995
BaeGI	GKGCMC	2 cut(s)	317, 457
BarI	GAAGNNNNNNTAC	2 cut(s)	853, 885
Bbv12I	GWGCWC	2 cut(s)	317, 655
BbvI	GCAGC	1 cut(s)	54
BccI	CCATC	3 cut(s)	727, 817, 952
BcoDI	GTCTC	2 cut(s)	361, 901
BfaI	CTAG	4 cut(s)	771, 930, 957, 999
BfmI	CTRYAG	1 cut(s)	1032
BfuAI	ACCTGC	1 cut(s)	395
BglII	AGATCT	1 cut(s)	278
BisI	GCNGC	1 cut(s)	43
BlpI	GCTNAGC	1 cut(s)	474
BlsI	GCNGC	1 cut(s)	44
Bme18I	GGWCC	2 cut(s)	123, 995
BmeT110I	CYCGRG	1 cut(s)	323
BmgT120I	GGNCC	2 cut(s)	123, 995
BmiI	GGNNCC	2 cut(s)	124, 125
BmrI	ACTGGG	1 cut(s)	1036
BmsI	GCATC	1 cut(s)	460
BmuI	ACTGGG	1 cut(s)	1036
Bpu1102I	GCTNAGC	1 cut(s)	474
Bpu14I	TTCGAA	1 cut(s)	219
BpuEI	CTTGAG	1 cut(s)	385
BsaI	GGTCTC	2 cut(s)	361, 901
BsaXI	ACNNNNNCTCC	2 cut(s)	247, 277
Bse1I	ACTGG	3 cut(s)	462, 679, 1042
BseMII	CTCAG	3 cut(s)	98, 150, 203
BseNI	ACTGG	3 cut(s)	462, 679, 1042
BseRI	GAGGAG	2 cut(s)	630, 645
BseSI	GKGCMC	2 cut(s)	317, 457
BseXI	GCAGC	1 cut(s)	54
BsgI	GTGCAG	2 cut(s)	43, 708
Bsh1236I	CGCG	1 cut(s)	858
BshFI	GGCC	1 cut(s)	718
BsiHKAI	GWGCWC	2 cut(s)	317, 655
BsiHKCI	CYCGRG	1 cut(s)	323
BslFI	GGGAC	2 cut(s)	109, 808
BsmAI	GTCTC	2 cut(s)	361, 901
BsmFI	GGGAC	2 cut(s)	109, 808
BsmI	GAATGC	1 cut(s)	626
BsnI	GGCC	1 cut(s)	718
Bso31I	GGTCTC	2 cut(s)	361, 901
BsoBI	CYCGRG	1 cut(s)	323
Bsp119I	TTCGAA	1 cut(s)	219
Bsp1286I	GDGCHC	3 cut(s)	317, 457, 655
Bsp143I	GATC	2 cut(s)	139, 278
Bsp1720I	GCTNAGC	1 cut(s)	474
BspACI	CCGC	3 cut(s)	200, 246, 858
BspANI	GGCC	1 cut(s)	718
BspCNI	CTCAG	3 cut(s)	97, 149, 202
BspFNI	CGCG	1 cut(s)	858
BspHI	TCATGA	3 cut(s)	307, 762, 903
BspLI	GGNNCC	2 cut(s)	124, 125
BspMAI	CTGCAG	1 cut(s)	1036
BspMI	ACCTGC	1 cut(s)	395
BspT104I	TTCGAA	1 cut(s)	219
BspTNI	GGTCTC	2 cut(s)	361, 901
BsrI	ACTGG	3 cut(s)	462, 679, 1042
BssMI	GATC	2 cut(s)	139, 278
BssNAI	GTATAC	1 cut(s)	854
Bst1107I	GTATAC	1 cut(s)	854
Bst4CI	ACNGT	4 cut(s)	21, 589, 851, 1050
BstBI	TTCGAA	1 cut(s)	219
BstC8I	GCNNGC	3 cut(s)	560, 835, 974
BstDEI	CTNAG	4 cut(s)	84, 136, 189, 474
BstFNI	CGCG	1 cut(s)	858
BstKTI	GATC	2 cut(s)	142, 281
BstMAI	GTCTC	2 cut(s)	361, 901
BstMBI	GATC	2 cut(s)	139, 278
BstSFI	CTRYAG	1 cut(s)	1032
BstSLI	GKGCMC	2 cut(s)	317, 457
BstUI	CGCG	1 cut(s)	858
BstV1I	GCAGC	1 cut(s)	54
BstX2I	RGATCY	1 cut(s)	278
BstYI	RGATCY	1 cut(s)	278
BstZ17I	GTATAC	1 cut(s)	854
BsuRI	GGCC	1 cut(s)	718
BtsI	GCAGTG	1 cut(s)	945
BtsIMutI	CAGTG	5 cut(s)	455, 575, 894, 945, 1046
BveI	ACCTGC	1 cut(s)	395
Cac8I	GCNNGC	3 cut(s)	560, 835, 974
CaiI	CAGNNNCTG	2 cut(s)	617, 1048
CciI	TCATGA	3 cut(s)	307, 762, 903
Cfr13I	GGNCC	2 cut(s)	123, 995
Csp6I	GTAC	1 cut(s)	687
CviAII	CATG	5 cut(s)	77, 308, 763, 776, 904
CviQI	GTAC	1 cut(s)	687
DdeI	CTNAG	4 cut(s)	84, 136, 189, 474
DpnI	GATC	2 cut(s)	141, 280
DpnII	GATC	2 cut(s)	139, 278
Eco31I	GGTCTC	2 cut(s)	361, 901
Eco32I	GATATC	1 cut(s)	71
Eco47I	GGWCC	2 cut(s)	123, 995
Eco57I	CTGAAG	2 cut(s)	594, 645
Eco88I	CYCGRG	1 cut(s)	323
EcoO109I	RGGNCCY	1 cut(s)	123
EcoRI	GAATTC	1 cut(s)	766
EcoRV	GATATC	1 cut(s)	71
EcoT22I	ATGCAT	1 cut(s)	628
FaeI	CATG	5 cut(s)	80, 311, 766, 779, 907
FaqI	GGGAC	2 cut(s)	109, 808
FatI	CATG	5 cut(s)	76, 307, 762, 775, 903
FauI	CCCGC	2 cut(s)	193, 253
FauNDI	CATATG	1 cut(s)	463
FblI	GTMKAC	1 cut(s)	853
Fnu4HI	GCNGC	1 cut(s)	43
Fsp4HI	GCNGC	1 cut(s)	43
FspBI	CTAG	4 cut(s)	771, 930, 957, 999
GluI	GCNGC	1 cut(s)	43
HaeIII	GGCC	1 cut(s)	718
Hin1II	CATG	5 cut(s)	80, 311, 766, 779, 907
HinfI	GANTC	4 cut(s)	82, 232, 326, 637
HphI	GGTGA	1 cut(s)	440
Hpy166II	GTNNAC	4 cut(s)	315, 827, 854, 1022
Hpy188I	TCNGA	3 cut(s)	139, 283, 991
Hpy188III	TCNNGA	5 cut(s)	308, 323, 402, 763, 904
Hpy8I	GTNNAC	4 cut(s)	315, 827, 854, 1022
HpyAV	CCTTC	2 cut(s)	276, 669
HpyCH4III	ACNGT	4 cut(s)	21, 589, 851, 1050
HpyCH4IV	ACGT	2 cut(s)	699, 819
HpyCH4V	TGCA	9 cut(s)	24, 315, 333, 620, 626, 634, 725, 815, 1034
HpyF3I	CTNAG	4 cut(s)	84, 136, 189, 474
HpySE526I	ACGT	2 cut(s)	699, 819
Hsp92II	CATG	5 cut(s)	80, 311, 766, 779, 907
KflI	GGGWCCC	1 cut(s)	123
Kzo9I	GATC	2 cut(s)	139, 278
LmnI	GCTCC	1 cut(s)	658
Lsp1109I	GCAGC	1 cut(s)	54
LweI	GCATC	1 cut(s)	460
MaeI	CTAG	4 cut(s)	771, 930, 957, 999
MaeII	ACGT	2 cut(s)	699, 819
MaeIII	GTNAC	5 cut(s)	79, 395, 437, 1027, 1044
MalI	GATC	2 cut(s)	141, 280
MboI	GATC	2 cut(s)	139, 278
MboII	GAAGA	4 cut(s)	65, 362, 455, 545
MflI	RGATCY	1 cut(s)	278
MhlI	GDGCHC	3 cut(s)	317, 457, 655
MluCI	AATT	6 cut(s)	342, 406, 446, 766, 950, 966
MlyI	GAGTC	4 cut(s)	76, 226, 335, 631
MnlI	CCTC	5 cut(s)	250, 444, 473, 651, 666
Mph1103I	ATGCAT	1 cut(s)	628
MroXI	GAANNNNTTC	1 cut(s)	552
MseI	TTAA	2 cut(s)	345, 525
MspA1I	CMGCKG	1 cut(s)	45
Mva1269I	GAATGC	1 cut(s)	626
MvnI	CGCG	1 cut(s)	858
NdeI	CATATG	1 cut(s)	463
NdeII	GATC	2 cut(s)	139, 278
NlaIII	CATG	5 cut(s)	80, 311, 766, 779, 907
NlaIV	GGNNCC	2 cut(s)	124, 125
NmeAIII	GCCGAG	1 cut(s)	777
NmuCI	GTSAC	3 cut(s)	79, 395, 1044
NsiI	ATGCAT	1 cut(s)	628
NspV	TTCGAA	1 cut(s)	219
PagI	TCATGA	3 cut(s)	307, 762, 903
PcsI	WCGNNNNNNNCGW	1 cut(s)	562
PctI	GAATGC	1 cut(s)	626
PdmI	GAANNNNTTC	1 cut(s)	552
PkrI	GCNGC	1 cut(s)	44
PleI	GAGTC	4 cut(s)	76, 226, 334, 631
PpsI	GAGTC	4 cut(s)	76, 226, 334, 631
PpuMI	RGGWCCY	1 cut(s)	123
PshBI	ATTAAT	1 cut(s)	345
Psp1406I	AACGTT	1 cut(s)	819
Psp5II	RGGWCCY	1 cut(s)	123
PspN4I	GGNNCC	2 cut(s)	124, 125
PspPI	GGNCC	2 cut(s)	123, 995
PspPPI	RGGWCCY	1 cut(s)	123
PstI	CTGCAG	1 cut(s)	1036
PstNI	CAGNNNCTG	2 cut(s)	617, 1048
PsuI	RGATCY	1 cut(s)	278
PvuII	CAGCTG	1 cut(s)	45
RsaI	GTAC	1 cut(s)	688
RsaNI	GTAC	1 cut(s)	687
SaqAI	TTAA	2 cut(s)	345, 525
SatI	GCNGC	1 cut(s)	43
Sau3AI	GATC	2 cut(s)	139, 278
Sau96I	GGNCC	2 cut(s)	123, 995
SchI	GAGTC	4 cut(s)	76, 226, 335, 631
SduI	GDGCHC	3 cut(s)	317, 457, 655
SetI	ASST	8 cut(s)	47, 389, 616, 702, 822, 913, 1000, 1004
SfaNI	GCATC	1 cut(s)	460
SfcI	CTRYAG	1 cut(s)	1032
SfuI	TTCGAA	1 cut(s)	219
SinI	GGWCC	2 cut(s)	123, 995
SmlI	CTYRAG	1 cut(s)	400
SmoI	CTYRAG	1 cut(s)	400
Sse9I	AATT	6 cut(s)	342, 406, 446, 766, 950, 966
SsiI	CCGC	3 cut(s)	200, 246, 858
SspI	AATATT	1 cut(s)	805
SspMI	CTAG	4 cut(s)	771, 930, 957, 999
TaaI	ACNGT	4 cut(s)	21, 589, 851, 1050
TaiI	ACGT	2 cut(s)	702, 822
TaqI	TCGA	3 cut(s)	101, 219, 668
TasI	AATT	6 cut(s)	342, 406, 446, 766, 950, 966
Tru1I	TTAA	2 cut(s)	345, 525
Tru9I	TTAA	2 cut(s)	345, 525
TscAI	CASTG	5 cut(s)	462, 582, 901, 945, 1053
TseFI	GTSAC	3 cut(s)	79, 395, 1044
TseI	GCWGC	1 cut(s)	42
Tsp45I	GTSAC	3 cut(s)	79, 395, 1044
TspDTI	ATGAA	6 cut(s)	65, 167, 258, 363, 751, 779
TspGWI	ACGGA	3 cut(s)	289, 483, 1008
TspRI	CASTG	5 cut(s)	462, 582, 901, 945, 1053
VneI	GTGCAC	1 cut(s)	313
VpaK11BI	GGWCC	2 cut(s)	123, 995
VspI	ATTAAT	1 cut(s)	345
XapI	RAATTY	2 cut(s)	406, 766
XcmI	CCANNNNNNNNNTGG	1 cut(s)	782
XmiI	GTMKAC	1 cut(s)	853
XmnI	GAANNNNTTC	1 cut(s)	552
XspI	CTAG	4 cut(s)	771, 930, 957, 999
Zsp2I	ATGCAT	1 cut(s)	628

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