Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5B

Orthogroup ID

OG0009010

Physical Location & Seq

Genomic Coordinates Reverse (-)

14813880 .. 14815984

Gene Structure 2105 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5BG142700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 954 bp

ATGGGTTTGGTTTTTTTTTTTTATTGCAGAGATTTCATTAAGGCTAATCAAGCAAACGGCAATATGTACAATAGCCAGATGGATTCCGGTATGCTTTTGGCGGCAGCAACAATGCCGGAAAATAATCATATGCCGTTGTATCAGTCGGCTATCTGTGATCAAGCTAAGACATCGATGAACCAAGCGGAAAGCGGTCTCACGTACAACAACATCATATCTGCTCCGAGAAAGCGGTCGAGAGACTCGTTAATGAATGAGTTTAACAATTTTACGGTTCCTCAGCAGAAGAAACTCTCGTCCGGTCTTTCATCATCGTTTCTCGACCAAGACATTGCCTTTCAGATCCAACAGCAGCAGTCGGAGATTGATCGATTCATTGCCCAACATACGGAAAAAGTGAGACTAGAACTTGAAGAACAAAGAAGGCAAGAATCACGATTGTTAGTCTCGGCAATTCAAGAGAGAATCGTGAAGAAATTACAAGAAAAAGACGACGAGATACAGAGGATGAGCAAGCTTAATTGGGTTCTTCAGGAAAGGGTGAAAAGCCTATTCGTTGAAAATCAGATATGGAGAGACTTGGCTCAATCAAACGAAGCCGCGGCCAATTCTCTGCGCTCCAATTTAGAGCAAGTCCTAGCGCACGTCAGCGAAGAAGGCCACCAGATGGGAAATTTTGCTACTGCAGCTGCGCCCGAAGATGATGCGGAGTCATGTTGCGGTAGCAACGATTGCGGACATGAAACCGAAGCTGATGGGGGGTTAGTTGGTTGCACCGACACGGTGGTTGGCGGTGGCGATAGGATGTGCAAGAGGTGTGGCGTGAGAGAGTCAAAGGTGTTATTGTTGCCATGCAGGCATCTTTGCCTCTGTACAATGTGTGGGTCCACCCTTCAGAATTGTCCAGTATGTGATTCTGTCATGAATGCCAGCGTGCATGTTAATTTCTCTTAG

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:0005634 GO:0006464 GO:0006807 GO:0006950 GO:0006952 GO:0008150 GO:0008152 GO:0009605 GO:0009607 GO:0009617 GO:0009620 GO:0009719 GO:0009725 GO:0009739 GO:0009892 GO:0009987 GO:0010033 GO:0010466 GO:0010605 GO:0010941 GO:0010951 GO:0016567 GO:0016740 GO:0019222 GO:0019538 GO:0019787 GO:0030162 GO:0031323 GO:0031324 GO:0032268 GO:0032269 GO:0032446 GO:0033993 GO:0036211 GO:0042221 GO:0042742 GO:0043067 GO:0043069 GO:0043086 GO:0043170 GO:0043207 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044092 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0044424 GO:0044464 GO:0045861 GO:0048519 GO:0048523 GO:0050789 GO:0050790 GO:0050794 GO:0050832 GO:0050896 GO:0051171 GO:0051172 GO:0051246 GO:0051248 GO:0051336 GO:0051346 GO:0051704 GO:0051707 GO:0052547 GO:0052548 GO:0060255 GO:0060548 GO:0065007 GO:0065009 GO:0070647 GO:0071704 GO:0080090 GO:0098542 GO:0140096 GO:1901564 GO:1901700 GO:2000116 GO:2000117

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

zf-C3HC4_3

Protein Analysis

317

Amino Acids

35.44

Weight (kDa)

5.35

Isoelectric Point (pI)

56.21

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-C3HC4_3	PF13920	267 - 308	4.6e-10	Zinc finger, C3HC4 type (RING 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: OG0009010)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G19700 AT5G45100 AT5G45100
fragaria_vesca	FvH4_3g12030 FvH4_3g12030
malus_domestica	MD05G1255400.v1.1 MD10G1235500.v1.1
prunus_persica	Prupe.4G108500_v2.0.a1
pyrus_communis	pycom05g23380 pycom10g19700 pycom10g19710
rosa_chinensis	RchiOBHm_Chr5g0019721
rosa_laevigata	RLG00000032464
rosa_multiflora	Rmu_ssc0000062.1_g000019
rosa_roxburghii	Rroxscaffold_1G00058390
rosa_rugosa	Rorug05G0053500
rosa_samantha	Rh5AG143800 Rh5BG142700 Rh5CG154100 Rh5CG154200 Rh5DG142800
rosa_wichuraiana	Rw5G012730

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	667
AccII	CGCG	1 cut(s)	602
AclWI	GGATC	1 cut(s)	337
AcoI	YGGCCR	1 cut(s)	603
AcsI	RAATTY	1 cut(s)	673
AcuI	CTGAAG	2 cut(s)	515, 878
AfaI	GTAC	3 cut(s)	68, 203, 874
AfiI	CCNNNNNNNGG	2 cut(s)	388, 667
AgsI	TTSAA	3 cut(s)	413, 458, 560
AjiI	CACGTC	1 cut(s)	646
AluBI	AGCT	4 cut(s)	164, 517, 689, 752
AluI	AGCT	4 cut(s)	164, 517, 689, 752
Alw26I	GTCTC	5 cut(s)	200, 234, 394, 451, 570
AlwI	GGATC	1 cut(s)	337
AoxI	GGCC	2 cut(s)	603, 658
ApeKI	GCWGC	4 cut(s)	104, 352, 686, 689
ApoI	RAATTY	1 cut(s)	673
AspLEI	GCGC	3 cut(s)	618, 643, 694
AspS9I	GGNCC	1 cut(s)	885
AsuHPI	GGTGA	1 cut(s)	553
AvaII	GGWCC	1 cut(s)	885
BbvCI	CCTCAGC	1 cut(s)	279
BbvI	GCAGC	4 cut(s)	116, 364, 676, 698
BccI	CCATC	3 cut(s)	73, 661, 749
BceAI	ACGGC	2 cut(s)	73, 118
BcgI	CGANNNNNNTGC	2 cut(s)	686, 720
BclI	TGATCA	1 cut(s)	157
BcoDI	GTCTC	5 cut(s)	200, 234, 394, 451, 570
BfaI	CTAG	2 cut(s)	404, 638
BfmI	CTRYAG	1 cut(s)	684
BglI	GCCNNNNNGGC	1 cut(s)	856
BisI	GCNGC	7 cut(s)	102, 105, 353, 600, 603, 687, 690
BlsI	GCNGC	7 cut(s)	103, 106, 354, 601, 604, 688, 691
Bme18I	GGWCC	1 cut(s)	885
BmgBI	CACGTC	1 cut(s)	646
BmgT120I	GGNCC	1 cut(s)	885
BmiI	GGNNCC	2 cut(s)	276, 886
BmsI	GCATC	2 cut(s)	694, 868
Bpu10I	CCTNAGC	1 cut(s)	279
Bsa29I	ATCGAT	2 cut(s)	173, 370
BsaAI	YACGTR	1 cut(s)	201
BsaI	GGTCTC	1 cut(s)	200
BsaJI	CCNNGG	1 cut(s)	600
BsaWI	WCCGGW	2 cut(s)	86, 299
Bsc4I	CCNNNNNNNGG	2 cut(s)	388, 667
Bse1I	ACTGG	1 cut(s)	905
Bse3DI	GCAATG	2 cut(s)	330, 375
BseCI	ATCGAT	2 cut(s)	173, 370
BseDI	CCNNGG	1 cut(s)	600
BseGI	GGATG	2 cut(s)	513, 810
BseLI	CCNNNNNNNGG	2 cut(s)	388, 667
BseMI	GCAATG	2 cut(s)	330, 375
BseMII	CTCAG	1 cut(s)	293
BseNI	ACTGG	1 cut(s)	905
BseXI	GCAGC	4 cut(s)	116, 364, 676, 698
Bsh1236I	CGCG	1 cut(s)	602
Bsh1285I	CGRYCG	1 cut(s)	236
BshFI	GGCC	2 cut(s)	605, 660
BshVI	ATCGAT	2 cut(s)	173, 370
BsiEI	CGRYCG	1 cut(s)	236
BsiSI	CCGG	3 cut(s)	87, 116, 300
BslI	CCNNNNNNNGG	2 cut(s)	388, 667
BsmAI	GTCTC	5 cut(s)	200, 234, 394, 451, 570
BsmI	GAATGC	1 cut(s)	931
BsnI	GGCC	2 cut(s)	605, 660
Bso31I	GGTCTC	1 cut(s)	200
Bsp1407I	TGTACA	2 cut(s)	66, 872
Bsp143I	GATC	3 cut(s)	157, 342, 367
BspANI	GGCC	2 cut(s)	605, 660
BspCNI	CTCAG	1 cut(s)	292
BspDI	ATCGAT	2 cut(s)	173, 370
BspFNI	CGCG	1 cut(s)	602
BspHI	TCATGA	1 cut(s)	921
BspLI	GGNNCC	2 cut(s)	276, 886
BspMAI	CTGCAG	1 cut(s)	688
BspPI	GGATC	1 cut(s)	337
BspTNI	GGTCTC	1 cut(s)	200
BsrDI	GCAATG	2 cut(s)	330, 375
BsrGI	TGTACA	2 cut(s)	66, 872
BsrI	ACTGG	1 cut(s)	905
BssECI	CCNNGG	1 cut(s)	600
BssMI	GATC	3 cut(s)	157, 342, 367
Bst4CI	ACNGT	2 cut(s)	274, 784
BstAPI	GCANNNNNTGC	1 cut(s)	732
BstAUI	TGTACA	2 cut(s)	66, 872
BstBAI	YACGTR	1 cut(s)	201
BstC8I	GCNNGC	4 cut(s)	515, 857, 931, 935
BstDEI	CTNAG	3 cut(s)	165, 279, 951
BstDSI	CCRYGG	1 cut(s)	600
BstF5I	GGATG	2 cut(s)	513, 810
BstFNI	CGCG	1 cut(s)	602
BstHHI	GCGC	3 cut(s)	618, 643, 694
BstKTI	GATC	3 cut(s)	160, 345, 370
BstMAI	GTCTC	5 cut(s)	200, 234, 394, 451, 570
BstMBI	GATC	3 cut(s)	157, 342, 367
BstMCI	CGRYCG	1 cut(s)	236
BstMWI	GCNNNNNNNGC	5 cut(s)	50, 657, 686, 732, 856
BstNSI	RCATGY	1 cut(s)	941
BstSFI	CTRYAG	1 cut(s)	684
BstUI	CGCG	1 cut(s)	602
BstV1I	GCAGC	4 cut(s)	116, 364, 676, 698
BstX2I	RGATCY	1 cut(s)	342
BstYI	RGATCY	1 cut(s)	342
Bsu15I	ATCGAT	2 cut(s)	173, 370
BsuRI	GGCC	2 cut(s)	605, 660
BsuTUI	ATCGAT	2 cut(s)	173, 370
BtgI	CCRYGG	1 cut(s)	600
BtrI	CACGTC	1 cut(s)	646
BtsCI	GGATG	2 cut(s)	513, 810
Cac8I	GCNNGC	4 cut(s)	515, 857, 931, 935
CciI	TCATGA	1 cut(s)	921
CfoI	GCGC	3 cut(s)	618, 643, 694
Cfr13I	GGNCC	1 cut(s)	885
Cfr42I	CCGCGG	1 cut(s)	603
ClaI	ATCGAT	2 cut(s)	173, 370
Csp6I	GTAC	3 cut(s)	67, 202, 873
CspCI	CAANNNNNGTGG	2 cut(s)	799, 834
CviAII	CATG	5 cut(s)	714, 740, 852, 922, 938
CviQI	GTAC	3 cut(s)	67, 202, 873
DdeI	CTNAG	3 cut(s)	165, 279, 951
DpnI	GATC	3 cut(s)	159, 344, 369
DpnII	GATC	3 cut(s)	157, 342, 367
EaeI	YGGCCR	1 cut(s)	603
Eco31I	GGTCTC	1 cut(s)	200
Eco47I	GGWCC	1 cut(s)	885
Eco57I	CTGAAG	2 cut(s)	515, 878
FaeI	CATG	5 cut(s)	717, 743, 855, 925, 941
FatI	CATG	5 cut(s)	713, 739, 851, 921, 937
FauNDI	CATATG	1 cut(s)	129
FbaI	TGATCA	1 cut(s)	157
Fnu4HI	GCNGC	7 cut(s)	102, 105, 353, 600, 603, 687, 690
FokI	GGATG	2 cut(s)	520, 817
Fsp4HI	GCNGC	7 cut(s)	102, 105, 353, 600, 603, 687, 690
FspBI	CTAG	2 cut(s)	404, 638
GlaI	GCGC	3 cut(s)	617, 642, 693
GluI	GCNGC	7 cut(s)	102, 105, 353, 600, 603, 687, 690
HaeIII	GGCC	2 cut(s)	605, 660
HapII	CCGG	3 cut(s)	87, 116, 300
HhaI	GCGC	3 cut(s)	618, 643, 694
Hin1II	CATG	5 cut(s)	717, 743, 855, 925, 941
Hin6I	GCGC	3 cut(s)	616, 641, 692
HinP1I	GCGC	3 cut(s)	616, 641, 692
HindIII	AAGCTT	1 cut(s)	515
HinfI	GANTC	8 cut(s)	83, 242, 372, 431, 465, 710, 830, 914
HpaII	CCGG	3 cut(s)	87, 116, 300
HphI	GGTGA	1 cut(s)	553
Hpy166II	GTNNAC	1 cut(s)	888
Hpy188I	TCNGA	5 cut(s)	225, 342, 361, 567, 897
Hpy188III	TCNNGA	7 cut(s)	237, 320, 435, 458, 469, 533, 922
Hpy8I	GTNNAC	1 cut(s)	888
Hpy99I	CGWCG	1 cut(s)	497
HpyAV	CCTTC	3 cut(s)	417, 650, 902
HpyCH4III	ACNGT	2 cut(s)	274, 784
HpyCH4IV	ACGT	2 cut(s)	200, 645
HpyCH4V	TGCA	6 cut(s)	27, 686, 774, 810, 855, 937
HpyF10VI	GCNNNNNNNGC	5 cut(s)	50, 657, 686, 732, 856
HpyF3I	CTNAG	3 cut(s)	165, 279, 951
HpySE526I	ACGT	2 cut(s)	200, 645
Hsp92II	CATG	5 cut(s)	717, 743, 855, 925, 941
HspAI	GCGC	3 cut(s)	616, 641, 692
Ksp22I	TGATCA	1 cut(s)	157
KspI	CCGCGG	1 cut(s)	603
Kzo9I	GATC	3 cut(s)	157, 342, 367
LmnI	GCTCC	2 cut(s)	226, 623
LpnPI	CCDG	9 cut(s)	89, 100, 129, 313, 518, 677, 841, 918, 943
Lsp1109I	GCAGC	4 cut(s)	116, 364, 676, 698
LweI	GCATC	2 cut(s)	694, 868
MaeI	CTAG	2 cut(s)	404, 638
MaeII	ACGT	2 cut(s)	200, 645
MalI	GATC	3 cut(s)	159, 344, 369
MboI	GATC	3 cut(s)	157, 342, 367
MboII	GAAGA	6 cut(s)	298, 425, 484, 521, 665, 710
MflI	RGATCY	1 cut(s)	342
MluCI	AATT	9 cut(s)	265, 453, 476, 520, 607, 622, 673, 898, 943
MlyI	GAGTC	3 cut(s)	236, 719, 839
MmeI	TCCRAC	2 cut(s)	339, 370
MnlI	CCTC	4 cut(s)	288, 498, 807, 878
MseI	TTAA	5 cut(s)	39, 248, 261, 519, 942
MspA1I	CMGCKG	2 cut(s)	602, 689
MspI	CCGG	3 cut(s)	87, 116, 300
Mva1269I	GAATGC	1 cut(s)	931
MvnI	CGCG	1 cut(s)	602
MwoI	GCNNNNNNNGC	5 cut(s)	50, 657, 686, 732, 856
NdeI	CATATG	1 cut(s)	129
NdeII	GATC	3 cut(s)	157, 342, 367
NlaIII	CATG	5 cut(s)	717, 743, 855, 925, 941
NlaIV	GGNNCC	2 cut(s)	276, 886
NmeAIII	GCCGAG	1 cut(s)	428
NspI	RCATGY	1 cut(s)	941
PagI	TCATGA	1 cut(s)	921
PcsI	WCGNNNNNNNCGW	1 cut(s)	242
PctI	GAATGC	1 cut(s)	931
PfeI	GAWTC	5 cut(s)	83, 372, 431, 465, 914
PflMI	CCANNNNNTGG	1 cut(s)	667
PkrI	GCNGC	7 cut(s)	103, 106, 354, 601, 604, 688, 691
PleI	GAGTC	3 cut(s)	236, 718, 838
PpsI	GAGTC	3 cut(s)	236, 718, 838
Ppu21I	YACGTR	1 cut(s)	201
PspN4I	GGNNCC	2 cut(s)	276, 886
PspPI	GGNCC	1 cut(s)	885
PstI	CTGCAG	1 cut(s)	688
PsuI	RGATCY	1 cut(s)	342
PvuII	CAGCTG	1 cut(s)	689
RsaI	GTAC	3 cut(s)	68, 203, 874
RsaNI	GTAC	3 cut(s)	67, 202, 873
SacII	CCGCGG	1 cut(s)	603
SaqAI	TTAA	5 cut(s)	39, 248, 261, 519, 942
SatI	GCNGC	7 cut(s)	102, 105, 353, 600, 603, 687, 690
Sau3AI	GATC	3 cut(s)	157, 342, 367
Sau96I	GGNCC	1 cut(s)	885
SchI	GAGTC	3 cut(s)	236, 719, 839
SetI	ASST	8 cut(s)	166, 203, 519, 648, 691, 754, 818, 840
SfaNI	GCATC	2 cut(s)	694, 868
SfcI	CTRYAG	1 cut(s)	684
Sfr303I	CCGCGG	1 cut(s)	603
SgrBI	CCGCGG	1 cut(s)	603
SinI	GGWCC	1 cut(s)	885
Sse9I	AATT	9 cut(s)	265, 453, 476, 520, 607, 622, 673, 898, 943
SspMI	CTAG	2 cut(s)	404, 638
TaaI	ACNGT	2 cut(s)	274, 784
TaiI	ACGT	2 cut(s)	203, 648
TaqI	TCGA	4 cut(s)	173, 236, 321, 370
TasI	AATT	9 cut(s)	265, 453, 476, 520, 607, 622, 673, 898, 943
TatI	WGTACW	2 cut(s)	66, 872
TauI	GCSGC	3 cut(s)	104, 602, 605
TfiI	GAWTC	5 cut(s)	83, 372, 431, 465, 914
Tru1I	TTAA	5 cut(s)	39, 248, 261, 519, 942
Tru9I	TTAA	5 cut(s)	39, 248, 261, 519, 942
TseI	GCWGC	4 cut(s)	104, 352, 686, 689
TspDTI	ATGAA	7 cut(s)	25, 191, 266, 297, 364, 756, 938
TspGWI	ACGGA	1 cut(s)	404
Van91I	CCANNNNNTGG	1 cut(s)	667
VpaK11BI	GGWCC	1 cut(s)	885
XapI	RAATTY	1 cut(s)	673
XceI	RCATGY	1 cut(s)	941
XspI	CTAG	2 cut(s)	404, 638

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