Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4C

Orthogroup ID

OG0010103

Physical Location & Seq

Genomic Coordinates Forward (+)

176797 .. 182540

Gene Structure 5744 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4CG000700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 927 bp

ATGCCTGTAAAGACAGAACCGTGCAGATACTTTCAGCGTGGCAGCTGTCAGTATGGAGATAAGTGTAGATATCTTCATGTGACTCAGCAACAGCCAAAGTCGAATATCTTTGGTGGATCCCAATCTGGCTCAAATCAGCACCAAAAGTCCAATCCTTATGGTTTTGGTGTTCATAACAACTCTCAGTCAAAAGCGGGAACTGATAAGCCTTTCGAAAACAAATGGACTCGTTCCTCCCCCGCAGCTGCTACTGCTACTCCTTCATCACGGAGATCTGATAACCAGCCCCAGACAACAAATCATGAGTGCACAAATCCCGAGTCTTGCAGAAGTATAATTAATGAAGATTTTGAGCGTGAGAGACCACTTTGGAAACTTACCTGCTATGGTCACTCAAGAAATTCTCCTTGTGATATTGTTGGTGATGTTAGTTACGAAGAATTGAGGGCACTGGCATATGATGATGCTAAGCGAGGGCTGAACTTGCCGTCAATAATTGAAAGAGAACGAAATGTGGTTAATACCAAGTCTATTGAGTTTGAAAATCTTCGCAAGCCCCGTGCTGTTCCACTGAACTCTACTGTTAGCCAAAGCCCTTTCGCTTCAGCTACTGCAAATGCATTCTTGCAGACTCCTCAAAGTAGTGCTCCTCCTTCAGTATCGAGTTTCAACCAGTTTGGTACATCCCTCAACGTGGGATTTGGACAAAGGCCATCTGCACCAGCAAATAATGGGTTTTTTCAGCCGAGCCTGTTCATGAATTCTAGCCATGCTTCAAGTGGATTTGGGACAAACAATATTCCATCTGCAAACGTTGGTAAGACTGTTTTGTTTCAGTGGATTTCAATGTGTGACTTTGATGCTCATGTGGCACTGGTCTGGTTAATTGGAATGGAACAAATAGGTGTGTTTAAGAACGAGGAATAG

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

308

Amino Acids

34.06

Weight (kDa)

8.6

Isoelectric Point (pI)

63.14

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-CCCH	PF00642	4 - 27	1.2e-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

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Align Labels (Cladogram)

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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)	389
AciI	CCGC	2 cut(s)	194, 240
AclI	AACGTT	1 cut(s)	813
AclWI	GGATC	2 cut(s)	111, 124
AcsI	RAATTY	2 cut(s)	400, 760
AcuI	CTGAAG	2 cut(s)	588, 639
AfaI	GTAC	1 cut(s)	682
AfiI	CCNNNNNNNGG	1 cut(s)	694
AgsI	TTSAA	5 cut(s)	500, 542, 670, 777, 846
AluBI	AGCT	3 cut(s)	45, 245, 608
AluI	AGCT	3 cut(s)	45, 245, 608
Alw21I	GWGCWC	2 cut(s)	311, 649
Alw26I	GTCTC	1 cut(s)	355
Alw44I	GTGCAC	1 cut(s)	307
AlwI	GGATC	2 cut(s)	111, 124
AlwNI	CAGNNNCTG	1 cut(s)	611
Ama87I	CYCGRG	1 cut(s)	317
AoxI	GGCC	1 cut(s)	710
ApaLI	GTGCAC	1 cut(s)	307
ApeKI	GCWGC	3 cut(s)	42, 242, 245
ApoI	RAATTY	2 cut(s)	400, 760
ArsI	GACNNNNNNTTYG	2 cut(s)	305, 337
AseI	ATTAAT	1 cut(s)	339
Asp700I	GAANNNNTTC	1 cut(s)	546
AsuHPI	GGTGA	1 cut(s)	434
AsuII	TTCGAA	1 cut(s)	213
AvaI	CYCGRG	1 cut(s)	317
BaeGI	GKGCMC	2 cut(s)	311, 451
BamHI	GGATCC	1 cut(s)	116
Bbv12I	GWGCWC	2 cut(s)	311, 649
BbvI	GCAGC	3 cut(s)	54, 232, 254
BccI	CCATC	2 cut(s)	721, 811
BceAI	ACGGC	1 cut(s)	472
BcoDI	GTCTC	1 cut(s)	355
BfaI	CTAG	1 cut(s)	765
BfuAI	ACCTGC	1 cut(s)	389
BglII	AGATCT	1 cut(s)	272
BisI	GCNGC	3 cut(s)	43, 243, 246
BlpI	GCTNAGC	1 cut(s)	468
BlsI	GCNGC	3 cut(s)	44, 244, 247
BmeT110I	CYCGRG	1 cut(s)	317
BmiI	GGNNCC	1 cut(s)	118
BmsI	GCATC	2 cut(s)	454, 850
Bpu1102I	GCTNAGC	1 cut(s)	468
Bpu14I	TTCGAA	1 cut(s)	213
BpuEI	CTTGAG	1 cut(s)	379
BsaBI	GATNNNNATC	1 cut(s)	121
BsaI	GGTCTC	1 cut(s)	355
BsaXI	ACNNNNNCTCC	2 cut(s)	241, 271
Bsc4I	CCNNNNNNNGG	1 cut(s)	694
Bse1I	ACTGG	3 cut(s)	456, 673, 879
Bse8I	GATNNNNATC	1 cut(s)	121
BseGI	GGATG	1 cut(s)	683
BseJI	GATNNNNATC	1 cut(s)	121
BseLI	CCNNNNNNNGG	1 cut(s)	694
BseMII	CTCAG	2 cut(s)	98, 197
BseNI	ACTGG	3 cut(s)	456, 673, 879
BseRI	GAGGAG	2 cut(s)	624, 639
BseSI	GKGCMC	2 cut(s)	311, 451
BseXI	GCAGC	3 cut(s)	54, 232, 254
BsgI	GTGCAG	2 cut(s)	43, 702
BshFI	GGCC	1 cut(s)	712
BsiHKAI	GWGCWC	2 cut(s)	311, 649
BsiHKCI	CYCGRG	1 cut(s)	317
BslFI	GGGAC	1 cut(s)	802
BslI	CCNNNNNNNGG	1 cut(s)	694
BsmAI	GTCTC	1 cut(s)	355
BsmFI	GGGAC	1 cut(s)	802
BsmI	GAATGC	1 cut(s)	620
BsnI	GGCC	1 cut(s)	712
Bso31I	GGTCTC	1 cut(s)	355
BsoBI	CYCGRG	1 cut(s)	317
Bsp119I	TTCGAA	1 cut(s)	213
Bsp1286I	GDGCHC	3 cut(s)	311, 451, 649
Bsp143I	GATC	2 cut(s)	116, 272
Bsp1720I	GCTNAGC	1 cut(s)	468
BspACI	CCGC	2 cut(s)	194, 240
BspANI	GGCC	1 cut(s)	712
BspCNI	CTCAG	2 cut(s)	97, 196
BspHI	TCATGA	2 cut(s)	301, 756
BspLI	GGNNCC	1 cut(s)	118
BspMI	ACCTGC	1 cut(s)	389
BspPI	GGATC	2 cut(s)	111, 124
BspT104I	TTCGAA	1 cut(s)	213
BspTNI	GGTCTC	1 cut(s)	355
BsrI	ACTGG	3 cut(s)	456, 673, 879
BssMI	GATC	2 cut(s)	116, 272
Bst4CI	ACNGT	3 cut(s)	21, 583, 826
BstBI	TTCGAA	1 cut(s)	213
BstC8I	GCNNGC	1 cut(s)	554
BstDEI	CTNAG	3 cut(s)	84, 183, 468
BstF5I	GGATG	1 cut(s)	683
BstKTI	GATC	2 cut(s)	119, 275
BstMAI	GTCTC	1 cut(s)	355
BstMBI	GATC	2 cut(s)	116, 272
BstMWI	GCNNNNNNNGC	3 cut(s)	251, 484, 869
BstSLI	GKGCMC	2 cut(s)	311, 451
BstV1I	GCAGC	3 cut(s)	54, 232, 254
BstX2I	RGATCY	2 cut(s)	116, 272
BstYI	RGATCY	2 cut(s)	116, 272
BsuRI	GGCC	1 cut(s)	712
BtsCI	GGATG	1 cut(s)	683
BtsIMutI	CAGTG	4 cut(s)	449, 569, 842, 872
BveI	ACCTGC	1 cut(s)	389
Cac8I	GCNNGC	1 cut(s)	554
CaiI	CAGNNNCTG	1 cut(s)	611
CciI	TCATGA	2 cut(s)	301, 756
Csp6I	GTAC	1 cut(s)	681
CviAII	CATG	5 cut(s)	77, 302, 757, 770, 866
CviQI	GTAC	1 cut(s)	681
DdeI	CTNAG	3 cut(s)	84, 183, 468
DpnI	GATC	2 cut(s)	118, 274
DpnII	GATC	2 cut(s)	116, 272
Eco31I	GGTCTC	1 cut(s)	355
Eco32I	GATATC	1 cut(s)	71
Eco57I	CTGAAG	2 cut(s)	588, 639
Eco88I	CYCGRG	1 cut(s)	317
EcoRI	GAATTC	1 cut(s)	760
EcoRV	GATATC	1 cut(s)	71
EcoT22I	ATGCAT	1 cut(s)	622
FaeI	CATG	5 cut(s)	80, 305, 760, 773, 869
FaqI	GGGAC	1 cut(s)	802
FatI	CATG	5 cut(s)	76, 301, 756, 769, 865
FauI	CCCGC	2 cut(s)	187, 247
FauNDI	CATATG	1 cut(s)	457
Fnu4HI	GCNGC	3 cut(s)	43, 243, 246
FokI	GGATG	1 cut(s)	670
Fsp4HI	GCNGC	3 cut(s)	43, 243, 246
FspBI	CTAG	1 cut(s)	765
GluI	GCNGC	3 cut(s)	43, 243, 246
HaeIII	GGCC	1 cut(s)	712
Hin1II	CATG	5 cut(s)	80, 305, 760, 773, 869
HinfI	GANTC	4 cut(s)	82, 226, 320, 631
HphI	GGTGA	1 cut(s)	434
Hpy166II	GTNNAC	1 cut(s)	309
Hpy188I	TCNGA	1 cut(s)	277
Hpy188III	TCNNGA	4 cut(s)	302, 317, 396, 757
Hpy8I	GTNNAC	1 cut(s)	309
HpyAV	CCTTC	2 cut(s)	270, 663
HpyCH4III	ACNGT	3 cut(s)	21, 583, 826
HpyCH4IV	ACGT	2 cut(s)	693, 813
HpyCH4V	TGCA	8 cut(s)	24, 309, 327, 614, 620, 628, 719, 809
HpyF10VI	GCNNNNNNNGC	3 cut(s)	251, 484, 869
HpyF3I	CTNAG	3 cut(s)	84, 183, 468
HpySE526I	ACGT	2 cut(s)	693, 813
Hsp92II	CATG	5 cut(s)	80, 305, 760, 773, 869
Kzo9I	GATC	2 cut(s)	116, 272
LmnI	GCTCC	1 cut(s)	652
Lsp1109I	GCAGC	3 cut(s)	54, 232, 254
LweI	GCATC	2 cut(s)	454, 850
MaeI	CTAG	1 cut(s)	765
MaeII	ACGT	2 cut(s)	693, 813
MaeIII	GTNAC	4 cut(s)	79, 389, 431, 851
MalI	GATC	2 cut(s)	118, 274
MboI	GATC	2 cut(s)	116, 272
MboII	GAAGA	4 cut(s)	65, 356, 449, 539
MflI	RGATCY	2 cut(s)	116, 272
MhlI	GDGCHC	3 cut(s)	311, 451, 649
MluCI	AATT	6 cut(s)	336, 400, 440, 495, 760, 885
MlyI	GAGTC	4 cut(s)	76, 220, 329, 625
MnlI	CCTC	7 cut(s)	244, 438, 467, 645, 660, 698, 913
Mph1103I	ATGCAT	1 cut(s)	622
MroXI	GAANNNNTTC	1 cut(s)	546
MseI	TTAA	4 cut(s)	339, 519, 884, 912
MspA1I	CMGCKG	2 cut(s)	45, 245
Mva1269I	GAATGC	1 cut(s)	620
MwoI	GCNNNNNNNGC	3 cut(s)	251, 484, 869
NdeI	CATATG	1 cut(s)	457
NdeII	GATC	2 cut(s)	116, 272
NlaIII	CATG	5 cut(s)	80, 305, 760, 773, 869
NlaIV	GGNNCC	1 cut(s)	118
NmeAIII	GCCGAG	1 cut(s)	771
NmuCI	GTSAC	3 cut(s)	79, 389, 851
NsiI	ATGCAT	1 cut(s)	622
NspV	TTCGAA	1 cut(s)	213
PagI	TCATGA	2 cut(s)	301, 756
PcsI	WCGNNNNNNNCGW	1 cut(s)	556
PctI	GAATGC	1 cut(s)	620
PdmI	GAANNNNTTC	1 cut(s)	546
PkrI	GCNGC	3 cut(s)	44, 244, 247
PleI	GAGTC	4 cut(s)	76, 220, 328, 625
PpsI	GAGTC	4 cut(s)	76, 220, 328, 625
PshBI	ATTAAT	1 cut(s)	339
Psp1406I	AACGTT	1 cut(s)	813
PspN4I	GGNNCC	1 cut(s)	118
PstNI	CAGNNNCTG	1 cut(s)	611
PsuI	RGATCY	2 cut(s)	116, 272
PvuII	CAGCTG	2 cut(s)	45, 245
RsaI	GTAC	1 cut(s)	682
RsaNI	GTAC	1 cut(s)	681
SaqAI	TTAA	4 cut(s)	339, 519, 884, 912
SatI	GCNGC	3 cut(s)	43, 243, 246
Sau3AI	GATC	2 cut(s)	116, 272
SchI	GAGTC	4 cut(s)	76, 220, 329, 625
SduI	GDGCHC	3 cut(s)	311, 451, 649
SetI	ASST	7 cut(s)	47, 247, 383, 610, 696, 816, 907
SfaNI	GCATC	2 cut(s)	454, 850
SfuI	TTCGAA	1 cut(s)	213
SmlI	CTYRAG	1 cut(s)	394
SmoI	CTYRAG	1 cut(s)	394
Sse9I	AATT	6 cut(s)	336, 400, 440, 495, 760, 885
SsiI	CCGC	2 cut(s)	194, 240
SspI	AATATT	1 cut(s)	799
SspMI	CTAG	1 cut(s)	765
TaaI	ACNGT	3 cut(s)	21, 583, 826
TaiI	ACGT	2 cut(s)	696, 816
TaqI	TCGA	3 cut(s)	101, 213, 662
TasI	AATT	6 cut(s)	336, 400, 440, 495, 760, 885
Tru1I	TTAA	4 cut(s)	339, 519, 884, 912
Tru9I	TTAA	4 cut(s)	339, 519, 884, 912
TscAI	CASTG	4 cut(s)	456, 576, 842, 879
TseFI	GTSAC	3 cut(s)	79, 389, 851
TseI	GCWGC	3 cut(s)	42, 242, 245
Tsp45I	GTSAC	3 cut(s)	79, 389, 851
TspDTI	ATGAA	6 cut(s)	65, 161, 252, 357, 745, 773
TspGWI	ACGGA	1 cut(s)	283
TspRI	CASTG	4 cut(s)	456, 576, 842, 879
VneI	GTGCAC	1 cut(s)	307
VspI	ATTAAT	1 cut(s)	339
XapI	RAATTY	2 cut(s)	400, 760
XcmI	CCANNNNNNNNNTGG	1 cut(s)	776
XmnI	GAANNNNTTC	1 cut(s)	546
XspI	CTAG	1 cut(s)	765
Zsp2I	ATGCAT	1 cut(s)	622

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