Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4A

Orthogroup ID

OG0010103

Physical Location & Seq

Genomic Coordinates Forward (+)

225157 .. 230963

Gene Structure 5807 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4AG000900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 969 bp

ATGCCTGTAAAGACAGAACCGTGCAGATACTTTCAGCGTGGCAGCTGTCAGTATGGAGATAAGTGTAGATATCTTCATGTGACTCAGCAACAGCCAAAGTCGAATATCTTTGGTGGATTTGGGTCGCAATCTGGCTCAGATCAGCACCAAAAGTCCAATCCTTATGGTTTTGGTGTTCAAAGCAACTCTCAGTCAAAAGCGGGAAGTGATAAGCCTTTCGAAAACAAATGGACTCGTTCCTCCCCCGCAGCTGCTACTGCTACTCCTTCATCACGGAGATCTGATAACCAGCCCCAGACAACAAATCATGAGTGCACAAATCCCGAGTCTTGCAGAAGTATAATTAATGAAGATTTTGAGCGTGAGAGACCACTTTGGAAACTTACCTGCTATGGTCACTCAAGAAGTTCTCCTTGTGATATTGTTGGTGATGTTAGTTATGAAGAATTGAGGGCACTGGCATATGATGATGCTAAGCGAGGGCTGAACTTGCCGTCAATAATTGAAAGAGAACGAAATCTGGTTAATACCAAGTCTATTGAGTTTGAAAATCTTCGCAAGCCCCGTGCTGTTCCACTGAACTCTACTGTTAGCCAAAGCCCTTTCGCTTCAGCTACTGCAAATGCATTCTTGCAGACTCCTCAAAGTAGTGCTCCTCCTTCAGTATCAAGTTTCAGCCAGTTTGGTACATCCCTCAACGTGGGATTTGGACAAAGGCCATCTGCACCAGCAAATAATGGTTTTTTTCAGCCGAGCCTGTTCATGAATTCTAGCCATGCTTCAAGTGGATTTGGGACAAACAATATTCCATCTGCAAACGTTGGTAAGACTGTTTTGTTTCAGTGGATTTCAATGTGTGACTTTGATGCTCATGTGGCACTGGTCTGGTTAATTGGAATGGAACAAATAGGTGTGTTTAAGAATGAGGAATGGGTAGCTTCTCTTGGGTACCATTATCTAGGTGTTTAA

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

322

Amino Acids

35.52

Weight (kDa)

8.38

Isoelectric Point (pI)

65.13

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-CCCH	PF00642	4 - 27	1.3e-09	Zinc finger C-x8-C-x5-C-x3-H type (and similar)
zf-CCCH_4	PF18044	7 - 26	1.2e-08	CCCH-type zinc finger
zf_CCCH_4	PF18345	8 - 26	1.2e-07	Zinc finger domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

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

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
Acc65I	GGTACC	1 cut(s)	948
AccB1I	GGYRCC	1 cut(s)	948
AciI	CCGC	2 cut(s)	200, 246
AclI	AACGTT	1 cut(s)	819
AcsI	RAATTY	1 cut(s)	766
AcuI	CTGAAG	2 cut(s)	594, 645
AfaI	GTAC	2 cut(s)	688, 950
AfiI	CCNNNNNNNGG	1 cut(s)	700
AgsI	TTSAA	5 cut(s)	179, 506, 548, 783, 852
AluBI	AGCT	4 cut(s)	45, 251, 614, 938
AluI	AGCT	4 cut(s)	45, 251, 614, 938
Alw21I	GWGCWC	2 cut(s)	317, 655
Alw26I	GTCTC	1 cut(s)	361
Alw44I	GTGCAC	1 cut(s)	313
AlwNI	CAGNNNCTG	1 cut(s)	617
Ama87I	CYCGRG	1 cut(s)	323
AoxI	GGCC	1 cut(s)	716
ApaLI	GTGCAC	1 cut(s)	313
ApeKI	GCWGC	3 cut(s)	42, 248, 251
ApoI	RAATTY	1 cut(s)	766
ArsI	GACNNNNNNTTYG	2 cut(s)	311, 343
AseI	ATTAAT	1 cut(s)	345
Asp700I	GAANNNNTTC	1 cut(s)	552
Asp718I	GGTACC	1 cut(s)	948
AsuHPI	GGTGA	1 cut(s)	440
AsuII	TTCGAA	1 cut(s)	219
AvaI	CYCGRG	1 cut(s)	323
BaeGI	GKGCMC	2 cut(s)	317, 457
BanI	GGYRCC	1 cut(s)	948
Bbv12I	GWGCWC	2 cut(s)	317, 655
BbvI	GCAGC	3 cut(s)	54, 238, 260
BccI	CCATC	2 cut(s)	727, 817
BceAI	ACGGC	1 cut(s)	478
BcoDI	GTCTC	1 cut(s)	361
BfaI	CTAG	2 cut(s)	771, 959
BfuAI	ACCTGC	1 cut(s)	395
BglII	AGATCT	1 cut(s)	278
BisI	GCNGC	3 cut(s)	43, 249, 252
BlpI	GCTNAGC	1 cut(s)	474
BlsI	GCNGC	3 cut(s)	44, 250, 253
BmeT110I	CYCGRG	1 cut(s)	323
BmiI	GGNNCC	1 cut(s)	950
BmsI	GCATC	2 cut(s)	460, 856
Bpu1102I	GCTNAGC	1 cut(s)	474
Bpu14I	TTCGAA	1 cut(s)	219
BpuEI	CTTGAG	1 cut(s)	385
BsaI	GGTCTC	1 cut(s)	361
BsaXI	ACNNNNNCTCC	2 cut(s)	247, 277
Bsc4I	CCNNNNNNNGG	1 cut(s)	700
Bse1I	ACTGG	3 cut(s)	462, 679, 885
BseGI	GGATG	1 cut(s)	689
BseLI	CCNNNNNNNGG	1 cut(s)	700
BseMII	CTCAG	3 cut(s)	98, 150, 203
BseNI	ACTGG	3 cut(s)	462, 679, 885
BseRI	GAGGAG	2 cut(s)	630, 645
BseSI	GKGCMC	2 cut(s)	317, 457
BseXI	GCAGC	3 cut(s)	54, 238, 260
BsgI	GTGCAG	2 cut(s)	43, 708
BshFI	GGCC	1 cut(s)	718
BshNI	GGYRCC	1 cut(s)	948
BsiHKAI	GWGCWC	2 cut(s)	317, 655
BsiHKCI	CYCGRG	1 cut(s)	323
BslFI	GGGAC	1 cut(s)	808
BslI	CCNNNNNNNGG	1 cut(s)	700
BsmAI	GTCTC	1 cut(s)	361
BsmFI	GGGAC	1 cut(s)	808
BsmI	GAATGC	1 cut(s)	626
BsnI	GGCC	1 cut(s)	718
Bso31I	GGTCTC	1 cut(s)	361
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	2 cut(s)	200, 246
BspANI	GGCC	1 cut(s)	718
BspCNI	CTCAG	3 cut(s)	97, 149, 202
BspHI	TCATGA	2 cut(s)	307, 762
BspLI	GGNNCC	1 cut(s)	950
BspMI	ACCTGC	1 cut(s)	395
BspT104I	TTCGAA	1 cut(s)	219
BspT107I	GGYRCC	1 cut(s)	948
BspTNI	GGTCTC	1 cut(s)	361
BsrI	ACTGG	3 cut(s)	462, 679, 885
BssMI	GATC	2 cut(s)	139, 278
Bst4CI	ACNGT	3 cut(s)	21, 589, 832
BstBI	TTCGAA	1 cut(s)	219
BstC8I	GCNNGC	1 cut(s)	560
BstDEI	CTNAG	4 cut(s)	84, 136, 189, 474
BstF5I	GGATG	1 cut(s)	689
BstKTI	GATC	2 cut(s)	142, 281
BstMAI	GTCTC	1 cut(s)	361
BstMBI	GATC	2 cut(s)	139, 278
BstMWI	GCNNNNNNNGC	3 cut(s)	257, 490, 875
BstSLI	GKGCMC	2 cut(s)	317, 457
BstV1I	GCAGC	3 cut(s)	54, 238, 260
BstX2I	RGATCY	1 cut(s)	278
BstYI	RGATCY	1 cut(s)	278
BsuRI	GGCC	1 cut(s)	718
BtsCI	GGATG	1 cut(s)	689
BtsIMutI	CAGTG	4 cut(s)	455, 575, 848, 878
BveI	ACCTGC	1 cut(s)	395
Cac8I	GCNNGC	1 cut(s)	560
CaiI	CAGNNNCTG	1 cut(s)	617
CciI	TCATGA	2 cut(s)	307, 762
Csp6I	GTAC	2 cut(s)	687, 949
CviAII	CATG	5 cut(s)	77, 308, 763, 776, 872
CviQI	GTAC	2 cut(s)	687, 949
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	1 cut(s)	361
Eco32I	GATATC	1 cut(s)	71
Eco57I	CTGAAG	2 cut(s)	594, 645
Eco88I	CYCGRG	1 cut(s)	323
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, 875
FalI	AAGNNNNNCTT	2 cut(s)	397, 429
FaqI	GGGAC	1 cut(s)	808
FatI	CATG	5 cut(s)	76, 307, 762, 775, 871
FauI	CCCGC	2 cut(s)	193, 253
FauNDI	CATATG	1 cut(s)	463
Fnu4HI	GCNGC	3 cut(s)	43, 249, 252
FokI	GGATG	1 cut(s)	676
Fsp4HI	GCNGC	3 cut(s)	43, 249, 252
FspBI	CTAG	2 cut(s)	771, 959
GluI	GCNGC	3 cut(s)	43, 249, 252
HaeIII	GGCC	1 cut(s)	718
Hin1II	CATG	5 cut(s)	80, 311, 766, 779, 875
HinfI	GANTC	4 cut(s)	82, 232, 326, 637
HphI	GGTGA	1 cut(s)	440
Hpy166II	GTNNAC	1 cut(s)	315
Hpy188I	TCNGA	2 cut(s)	139, 283
Hpy188III	TCNNGA	4 cut(s)	308, 323, 402, 763
Hpy8I	GTNNAC	1 cut(s)	315
HpyAV	CCTTC	2 cut(s)	276, 669
HpyCH4III	ACNGT	3 cut(s)	21, 589, 832
HpyCH4IV	ACGT	2 cut(s)	699, 819
HpyCH4V	TGCA	8 cut(s)	24, 315, 333, 620, 626, 634, 725, 815
HpyF10VI	GCNNNNNNNGC	3 cut(s)	257, 490, 875
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, 875
KpnI	GGTACC	1 cut(s)	952
Kzo9I	GATC	2 cut(s)	139, 278
LmnI	GCTCC	1 cut(s)	658
Lsp1109I	GCAGC	3 cut(s)	54, 238, 260
LweI	GCATC	2 cut(s)	460, 856
MaeI	CTAG	2 cut(s)	771, 959
MaeII	ACGT	2 cut(s)	699, 819
MaeIII	GTNAC	3 cut(s)	79, 395, 857
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	5 cut(s)	342, 446, 501, 766, 891
MlyI	GAGTC	4 cut(s)	76, 226, 335, 631
MnlI	CCTC	7 cut(s)	250, 444, 473, 651, 666, 704, 919
Mph1103I	ATGCAT	1 cut(s)	628
MroXI	GAANNNNTTC	1 cut(s)	552
MseI	TTAA	5 cut(s)	345, 525, 890, 918, 967
MspA1I	CMGCKG	2 cut(s)	45, 251
Mva1269I	GAATGC	1 cut(s)	626
MwoI	GCNNNNNNNGC	3 cut(s)	257, 490, 875
NdeI	CATATG	1 cut(s)	463
NdeII	GATC	2 cut(s)	139, 278
NlaIII	CATG	5 cut(s)	80, 311, 766, 779, 875
NlaIV	GGNNCC	1 cut(s)	950
NmeAIII	GCCGAG	1 cut(s)	777
NmuCI	GTSAC	3 cut(s)	79, 395, 857
NsiI	ATGCAT	1 cut(s)	628
NspV	TTCGAA	1 cut(s)	219
PagI	TCATGA	2 cut(s)	307, 762
PcsI	WCGNNNNNNNCGW	1 cut(s)	562
PctI	GAATGC	1 cut(s)	626
PdmI	GAANNNNTTC	1 cut(s)	552
PkrI	GCNGC	3 cut(s)	44, 250, 253
PleI	GAGTC	4 cut(s)	76, 226, 334, 631
PpsI	GAGTC	4 cut(s)	76, 226, 334, 631
PshBI	ATTAAT	1 cut(s)	345
Psp1406I	AACGTT	1 cut(s)	819
PspN4I	GGNNCC	1 cut(s)	950
PstNI	CAGNNNCTG	1 cut(s)	617
PsuI	RGATCY	1 cut(s)	278
PvuII	CAGCTG	2 cut(s)	45, 251
RsaI	GTAC	2 cut(s)	688, 950
RsaNI	GTAC	2 cut(s)	687, 949
SaqAI	TTAA	5 cut(s)	345, 525, 890, 918, 967
SatI	GCNGC	3 cut(s)	43, 249, 252
Sau3AI	GATC	2 cut(s)	139, 278
SchI	GAGTC	4 cut(s)	76, 226, 335, 631
SduI	GDGCHC	3 cut(s)	317, 457, 655
SetI	ASST	9 cut(s)	47, 253, 389, 616, 702, 822, 913, 940, 964
SfaNI	GCATC	2 cut(s)	460, 856
SfuI	TTCGAA	1 cut(s)	219
SmlI	CTYRAG	1 cut(s)	400
SmoI	CTYRAG	1 cut(s)	400
Sse9I	AATT	5 cut(s)	342, 446, 501, 766, 891
SsiI	CCGC	2 cut(s)	200, 246
SspI	AATATT	1 cut(s)	805
SspMI	CTAG	2 cut(s)	771, 959
TaaI	ACNGT	3 cut(s)	21, 589, 832
TaiI	ACGT	2 cut(s)	702, 822
TaqI	TCGA	2 cut(s)	101, 219
TasI	AATT	5 cut(s)	342, 446, 501, 766, 891
Tru1I	TTAA	5 cut(s)	345, 525, 890, 918, 967
Tru9I	TTAA	5 cut(s)	345, 525, 890, 918, 967
TscAI	CASTG	4 cut(s)	462, 582, 848, 885
TseFI	GTSAC	3 cut(s)	79, 395, 857
TseI	GCWGC	3 cut(s)	42, 248, 251
Tsp45I	GTSAC	3 cut(s)	79, 395, 857
TspDTI	ATGAA	6 cut(s)	65, 258, 363, 456, 751, 779
TspGWI	ACGGA	1 cut(s)	289
TspRI	CASTG	4 cut(s)	462, 582, 848, 885
VneI	GTGCAC	1 cut(s)	313
VspI	ATTAAT	1 cut(s)	345
XapI	RAATTY	1 cut(s)	766
XcmI	CCANNNNNNNNNTGG	1 cut(s)	782
XmnI	GAANNNNTTC	1 cut(s)	552
XspI	CTAG	2 cut(s)	771, 959
Zsp2I	ATGCAT	1 cut(s)	628

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