Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3C

Orthogroup ID

OG0002901

Physical Location & Seq

Genomic Coordinates Forward (+)

10380475 .. 10382279

Gene Structure 1805 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3CG127200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 615 bp

ATGAGATTATCATACAGCCCCGCGGCTCAATTCTTTCTGTTTCTTATTCAGTGGACTGATTGTCACCTTGCCGGTGCCTTAGGATTGCTTAGAATTCTTATATACAGGGCATATGAGGATGGGAAGACCACCATGTCAATTCATGAAAGAAAAGCTAGTTTAAAAGAGTTCTACAGTGTAATATTTCCCTCATTAGTGCAACTTCAAAGGGGAATGACTGATGTAGAAGAGCGGAAACAGAAAGAAATCTGTTCCAAGTACAAGAGAAAAGATGAGACGGACAAAGGAAAGCTCTCCGAAATTGAGTTGGAGCGAGAAGAAGAATGTGGTATTTGTATGGAGATGAACAGCAAGGTCGTATTGCCCAATTGCAGTCACTCTTTGTGTATAAAGTGCTATCGGAACTGGCGGACACGCTCTCAGTCCTGCCCCTTCTGCCGAGACAGCCTCAAAAGAGTTGACTCATGTGAACTTTGGATCTACACTGGCAACAATGAGATTGTTGACATGTCTGCAATCTCTAGGGAGAATTTGAAGAGACTATGTATCTACATTGATAAGCTGCCTCTTCTTGTTCCAAAGCATGGGGTTGTTTCTTATGACCTTTATCGATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001101 GO:0003674 GO:0003824 GO:0004842 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0006464 GO:0006508 GO:0006511 GO:0006807 GO:0006950 GO:0006970 GO:0008150 GO:0008152 GO:0009056 GO:0009057 GO:0009628 GO:0009651 GO:0009719 GO:0009725 GO:0009737 GO:0009787 GO:0009789 GO:0009966 GO:0009967 GO:0009987 GO:0010033 GO:0010646 GO:0010647 GO:0016567 GO:0016740 GO:0019538 GO:0019787 GO:0019941 GO:0023051 GO:0023056 GO:0030163 GO:0032446 GO:0033993 GO:0036211 GO:0042221 GO:0043170 GO:0043412 GO:0043632 GO:0044237 GO:0044238 GO:0044248 GO:0044257 GO:0044260 GO:0044265 GO:0044267 GO:0044424 GO:0044444 GO:0044464 GO:0048518 GO:0048522 GO:0048583 GO:0048584 GO:0050789 GO:0050794 GO:0050896 GO:0051603 GO:0061630 GO:0061659 GO:0065007 GO:0070647 GO:0071704 GO:0097305 GO:0140096 GO:1901419 GO:1901421 GO:1901564 GO:1901565 GO:1901575 GO:1901700 GO:1905957 GO:1905959

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

zf-C3HC4_3

Protein Analysis

204

Amino Acids

23.9

Weight (kDa)

8.59

Isoelectric Point (pI)

51.82

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-C3HC4_3	PF13920	106 - 152	5.3e-10	Zinc finger, C3HC4 type (RING finger)
zf-RING_2	PF13639	108 - 147	4.3e-08	Ring finger domain
zf-RING_5	PF14634	108 - 147	3.5e-06	zinc-RING finger domain
zf-C3HC4_2	PF13923	108 - 146	4.1e-06	Zinc finger, C3HC4 type (RING finger)
zf-C3HC4	PF00097	109 - 146	1.5e-06	Zinc finger, C3HC4 type (RING finger)

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready

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Orthologous Genes (Group: OG0002901)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G01520 AT5G01520
fragaria_vesca	FvH4_3g04920 FvH4_6g11510 FvH4_6g11510
malus_domestica	MD04G1151400.v1.1 MD05G1314700.v1.1 MD10G1296100.v1.1 MD12G1165500.v1.1
prunus_persica	Prupe.4G044500_v2.0.a1 Prupe.6G276500_v2.0.a1 Prupe.6G276500_v2.0.a1 Prupe.6G276500_v2.0.a1
pyrus_communis	pycom04g13730 pycom05g29250 pycom10g24860 pycom12g15810
rosa_chinensis	RchiOBHm_Chr3g0463221 RchiOBHm_Chr5g0008081
rosa_laevigata	RLG00000024801 RLG00000031534
rosa_multiflora	Rmu_sc0001626.1_g000003 Rmu_sc0004643.1_g000001 Rmu_sc0017465.1_g000004
rosa_roxburghii	Rroxscaffold_1G00068400 Rroxscaffold_6G00416790
rosa_rugosa	Rorug03G0062500 Rorug03G0062500 Rorug04G0433300
rosa_samantha	Rh3AG120700 Rh3BG125100 Rh3CG127200 Rh3DG126300 Rh5BG058100 Rh5CG068200 Rh5DG057300
rosa_wichuraiana	Rw3G010250 Rw5G005930

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	133
AccB1I	GGYRCC	1 cut(s)	74
AccB7I	CCANNNNNTGG	1 cut(s)	584
AccBSI	CCGCTC	1 cut(s)	232
AccII	CGCG	1 cut(s)	23
AciI	CCGC	4 cut(s)	21, 23, 232, 409
AclWI	GGATC	1 cut(s)	485
AcsI	RAATTY	2 cut(s)	93, 529
AfaI	GTAC	1 cut(s)	260
AfiI	CCNNNNNNNGG	1 cut(s)	584
AflIII	ACRYGT	1 cut(s)	507
AgsI	TTSAA	2 cut(s)	206, 535
AhdI	GACNNNNNGTC	1 cut(s)	60
AluBI	AGCT	3 cut(s)	155, 292, 562
AluI	AGCT	3 cut(s)	155, 292, 562
Alw26I	GTCTC	3 cut(s)	269, 435, 532
AlwI	GGATC	1 cut(s)	485
ApeKI	GCWGC	1 cut(s)	562
ApoI	RAATTY	2 cut(s)	93, 529
AsuHPI	GGTGA	1 cut(s)	56
AxyI	CCTNAGG	1 cut(s)	79
BanI	GGYRCC	1 cut(s)	74
BbsI	GAAGAC	1 cut(s)	131
BbvI	GCAGC	1 cut(s)	549
BccI	CCATC	1 cut(s)	113
BcoDI	GTCTC	3 cut(s)	269, 435, 532
BfaI	CTAG	2 cut(s)	156, 522
BfmI	CTRYAG	1 cut(s)	172
BisI	GCNGC	2 cut(s)	24, 563
BlsI	GCNGC	2 cut(s)	25, 564
BmeRI	GACNNNNNGTC	1 cut(s)	60
BmiI	GGNNCC	1 cut(s)	76
BpiI	GAAGAC	1 cut(s)	131
BplI	GAGNNNNNCTC	2 cut(s)	432, 464
Bsa29I	ATCGAT	1 cut(s)	610
BsaJI	CCNNGG	1 cut(s)	21
Bsc4I	CCNNNNNNNGG	1 cut(s)	584
Bse118I	RCCGGY	1 cut(s)	71
Bse1I	ACTGG	2 cut(s)	410, 490
Bse21I	CCTNAGG	1 cut(s)	79
BseCI	ATCGAT	1 cut(s)	610
BseDI	CCNNGG	1 cut(s)	21
BseGI	GGATG	1 cut(s)	124
BseLI	CCNNNNNNNGG	1 cut(s)	584
BseMII	CTCAG	1 cut(s)	434
BseNI	ACTGG	2 cut(s)	410, 490
BseXI	GCAGC	1 cut(s)	549
Bsh1236I	CGCG	1 cut(s)	23
BshNI	GGYRCC	1 cut(s)	74
BshVI	ATCGAT	1 cut(s)	610
BsiSI	CCGG	1 cut(s)	72
BslI	CCNNNNNNNGG	1 cut(s)	584
BsmAI	GTCTC	3 cut(s)	269, 435, 532
BsmBI	CGTCTC	1 cut(s)	269
Bsp143I	GATC	1 cut(s)	477
BspACI	CCGC	4 cut(s)	21, 23, 232, 409
BspCNI	CTCAG	1 cut(s)	433
BspDI	ATCGAT	1 cut(s)	610
BspFNI	CGCG	1 cut(s)	23
BspHI	TCATGA	1 cut(s)	142
BspLI	GGNNCC	1 cut(s)	76
BspPI	GGATC	1 cut(s)	485
BspQI	GCTCTTC	1 cut(s)	222
BspT107I	GGYRCC	1 cut(s)	74
BsrBI	CCGCTC	1 cut(s)	232
BsrFI	RCCGGY	1 cut(s)	71
BsrI	ACTGG	2 cut(s)	410, 490
BssAI	RCCGGY	1 cut(s)	71
BssECI	CCNNGG	1 cut(s)	21
BssMI	GATC	1 cut(s)	477
Bst4CI	ACNGT	1 cut(s)	176
Bst6I	CTCTTC	3 cut(s)	222, 530, 573
BstDEI	CTNAG	3 cut(s)	79, 89, 420
BstDSI	CCRYGG	1 cut(s)	21
BstF5I	GGATG	1 cut(s)	124
BstFNI	CGCG	1 cut(s)	23
BstKTI	GATC	1 cut(s)	480
BstMAI	GTCTC	3 cut(s)	269, 435, 532
BstMBI	GATC	1 cut(s)	477
BstMWI	GCNNNNNNNGC	2 cut(s)	435, 444
BstNSI	RCATGY	1 cut(s)	511
BstSFI	CTRYAG	1 cut(s)	172
BstUI	CGCG	1 cut(s)	23
BstV1I	GCAGC	1 cut(s)	549
BstV2I	GAAGAC	1 cut(s)	131
BstX2I	RGATCY	1 cut(s)	477
BstYI	RGATCY	1 cut(s)	477
Bsu15I	ATCGAT	1 cut(s)	610
Bsu36I	CCTNAGG	1 cut(s)	79
BsuTUI	ATCGAT	1 cut(s)	610
BtgI	CCRYGG	1 cut(s)	21
BtsCI	GGATG	1 cut(s)	124
BtsIMutI	CAGTG	3 cut(s)	56, 181, 483
CciI	TCATGA	1 cut(s)	142
Cfr10I	RCCGGY	1 cut(s)	71
Cfr42I	CCGCGG	1 cut(s)	24
ClaI	ATCGAT	1 cut(s)	610
Csp6I	GTAC	1 cut(s)	259
CviAII	CATG	5 cut(s)	133, 143, 465, 508, 584
CviJI	RGCY	6 cut(s)	18, 26, 155, 292, 447, 562
CviKI_1	RGCY	6 cut(s)	18, 26, 155, 292, 447, 562
CviQI	GTAC	1 cut(s)	259
DdeI	CTNAG	3 cut(s)	79, 89, 420
DpnI	GATC	1 cut(s)	479
DpnII	GATC	1 cut(s)	477
DraI	TTTAAA	1 cut(s)	162
DrdI	GACNNNNNNGTC	1 cut(s)	133
DriI	GACNNNNNGTC	1 cut(s)	60
DseDI	GACNNNNNNGTC	1 cut(s)	133
Eam1104I	CTCTTC	3 cut(s)	222, 530, 573
Eam1105I	GACNNNNNGTC	1 cut(s)	60
EarI	CTCTTC	3 cut(s)	222, 530, 573
EciI	GGCGGA	1 cut(s)	424
Eco81I	CCTNAGG	1 cut(s)	79
EcoRI	GAATTC	1 cut(s)	93
Esp3I	CGTCTC	1 cut(s)	269
FaeI	CATG	5 cut(s)	136, 146, 468, 511, 587
FatI	CATG	5 cut(s)	132, 142, 464, 507, 583
FauI	CCCGC	1 cut(s)	28
FauNDI	CATATG	1 cut(s)	112
Fnu4HI	GCNGC	2 cut(s)	24, 563
FokI	GGATG	1 cut(s)	131
Fsp4HI	GCNGC	2 cut(s)	24, 563
FspBI	CTAG	2 cut(s)	156, 522
GluI	GCNGC	2 cut(s)	24, 563
HapII	CCGG	1 cut(s)	72
Hin1II	CATG	5 cut(s)	136, 146, 468, 511, 587
HincII	GTYRAC	2 cut(s)	460, 505
HindII	GTYRAC	2 cut(s)	460, 505
HinfI	GANTC	1 cut(s)	461
HpaII	CCGG	1 cut(s)	72
HphI	GGTGA	1 cut(s)	56
Hpy166II	GTNNAC	4 cut(s)	54, 460, 470, 505
Hpy188I	TCNGA	2 cut(s)	298, 402
Hpy188III	TCNNGA	1 cut(s)	143
Hpy8I	GTNNAC	4 cut(s)	54, 460, 470, 505
HpyAV	CCTTC	1 cut(s)	442
HpyCH4III	ACNGT	1 cut(s)	176
HpyCH4V	TGCA	3 cut(s)	199, 372, 515
HpyF10VI	GCNNNNNNNGC	2 cut(s)	435, 444
HpyF3I	CTNAG	3 cut(s)	79, 89, 420
Hsp92II	CATG	5 cut(s)	136, 146, 468, 511, 587
KspI	CCGCGG	1 cut(s)	24
Kzo9I	GATC	1 cut(s)	477
LguI	GCTCTTC	1 cut(s)	222
LmnI	GCTCC	1 cut(s)	310
LpnPI	CCDG	5 cut(s)	85, 91, 391, 439, 471
Lsp1109I	GCAGC	1 cut(s)	549
MaeI	CTAG	2 cut(s)	156, 522
MaeIII	GTNAC	2 cut(s)	62, 374
MalI	GATC	1 cut(s)	479
MbiI	CCGCTC	1 cut(s)	232
MboI	GATC	1 cut(s)	477
MboII	GAAGA	6 cut(s)	136, 239, 329, 332, 547, 560
MfeI	CAATTG	1 cut(s)	367
MflI	RGATCY	1 cut(s)	477
MluCI	AATT	6 cut(s)	29, 93, 138, 300, 367, 529
MlyI	GAGTC	1 cut(s)	455
MmeI	TCCRAC	1 cut(s)	288
MnlI	CCTC	4 cut(s)	109, 199, 458, 576
MseI	TTAA	1 cut(s)	161
MspA1I	CMGCKG	1 cut(s)	23
MspI	CCGG	1 cut(s)	72
MunI	CAATTG	1 cut(s)	367
MvnI	CGCG	1 cut(s)	23
MwoI	GCNNNNNNNGC	2 cut(s)	435, 444
NdeI	CATATG	1 cut(s)	112
NdeII	GATC	1 cut(s)	477
NlaIII	CATG	5 cut(s)	136, 146, 468, 511, 587
NlaIV	GGNNCC	1 cut(s)	76
NmeAIII	GCCGAG	1 cut(s)	464
NmuCI	GTSAC	2 cut(s)	62, 374
NspI	RCATGY	1 cut(s)	511
PagI	TCATGA	1 cut(s)	142
PciI	ACATGT	1 cut(s)	507
PciSI	GCTCTTC	1 cut(s)	222
PflMI	CCANNNNNTGG	1 cut(s)	584
PkrI	GCNGC	2 cut(s)	25, 564
PleI	GAGTC	1 cut(s)	455
PpsI	GAGTC	1 cut(s)	455
PscI	ACATGT	1 cut(s)	507
PspN4I	GGNNCC	1 cut(s)	76
PsuI	RGATCY	1 cut(s)	477
RsaI	GTAC	1 cut(s)	260
RsaNI	GTAC	1 cut(s)	259
SacII	CCGCGG	1 cut(s)	24
SapI	GCTCTTC	1 cut(s)	222
SaqAI	TTAA	1 cut(s)	161
SatI	GCNGC	2 cut(s)	24, 563
Sau3AI	GATC	1 cut(s)	477
SchI	GAGTC	1 cut(s)	455
SetI	ASST	6 cut(s)	69, 157, 294, 357, 564, 606
SfcI	CTRYAG	1 cut(s)	172
Sfr303I	CCGCGG	1 cut(s)	24
SgrBI	CCGCGG	1 cut(s)	24
Sse9I	AATT	6 cut(s)	29, 93, 138, 300, 367, 529
SsiI	CCGC	4 cut(s)	21, 23, 232, 409
SspI	AATATT	1 cut(s)	183
SspMI	CTAG	2 cut(s)	156, 522
TaaI	ACNGT	1 cut(s)	176
TaqI	TCGA	1 cut(s)	610
TasI	AATT	6 cut(s)	29, 93, 138, 300, 367, 529
TatI	WGTACW	1 cut(s)	258
TauI	GCSGC	1 cut(s)	26
Tru1I	TTAA	1 cut(s)	161
Tru9I	TTAA	1 cut(s)	161
TscAI	CASTG	3 cut(s)	56, 181, 490
TseFI	GTSAC	2 cut(s)	62, 374
TseI	GCWGC	1 cut(s)	562
Tsp45I	GTSAC	2 cut(s)	62, 374
TspDTI	ATGAA	3 cut(s)	131, 159, 359
TspGWI	ACGGA	1 cut(s)	293
TspRI	CASTG	3 cut(s)	56, 181, 490
Van91I	CCANNNNNTGG	1 cut(s)	584
XapI	RAATTY	2 cut(s)	93, 529
XceI	RCATGY	1 cut(s)	511
XspI	CTAG	2 cut(s)	156, 522

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