Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5A

Orthogroup ID

OG0009010

Physical Location & Seq

Genomic Coordinates Reverse (-)

15115258 .. 15116834

Gene Structure 1577 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5AG143800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 990 bp

ATGGCGGTTGAAGCTCAGCATCACCACCACTCTGTTTTTGTTCAATCTCAGTTGATGGCGAATAGAGATTTCATCAAGGCTAATCAAGCAAACGGCAATATGTACAATAGCCAGATGGATTCCGGTATGCTTTTGGCGGCAGCAACAATGCCGGAAAATAATCATATGCCGTTTTATCAGTCGGCTATCTGTGATCAAGCTAAGACATCGATGAACCAAGCGGAAAGCGGTCTCACGTACAACAACATCGCATCTGCTCCGAGAAAGCGGTCGAGAGACTCGTTAATGAATGAGTTTAACAATTTTACGGTTCCTCAGCAGAAGAAACTCTCGTCCGGTCTGTCATCATCGTTTCTCGACCAAGACATTGCCTTTCAGATCCAACAGCAGCAGTCGGAGATTGATCGATTCATTGCCCAGCATACGGAAAAAGTGAGACTAGAACTTGAGGAACAAAGAAGGCAAGAATCAAGATTGTTAGTCTCGGCAATTCAAGAGAGAATCGTGAAGAAATTACAAGAAAAAGATGACGAGATACAGAGGATGAGCAAGCTTAATTGGGTTCTTCAGGAAAGGGTGAAAAGCCTATTCGTTGAAAATCAGATATGGAGAGACTTGGCTCAATCAAACGAAGCCGCGGCCAATTCTCTGCGCTCCAATTTAGAGCAAGTCCTAGCGCACGTCAGCGAAGAAGGCCAACAGATGGGAAATTTTGCTACAGCAGCTGCGCCCGAAGATGATGCGGAGTCATGTTGCGGTAGCAACGATTGCGGACATGAAACCGAAGCTGATGGGGGGTTAGTTGGTTGCACCGACACGGTGGTTGGCGGTGGCGATAGGATGTGCAAGAGGTGTGGCGTGAGAGAGTCAAAGGTGTTATTGTTGCCATGCAGGCATCTTTGCCTTTGTACAATGTGTGGGTCCACCCTTCAGAATTGTCCAGTATGTGATTCTGTCATGAATGCCAGCGTGCATGTTAATTTCTCTTAG

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

329

Amino Acids

36.7

Weight (kDa)

5.5

Isoelectric Point (pI)

58.37

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-C3HC4_3	PF13920	279 - 320	4.9e-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

Style Settings

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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)	703
AccII	CGCG	1 cut(s)	638
AclWI	GGATC	1 cut(s)	373
AcoI	YGGCCR	1 cut(s)	639
AcsI	RAATTY	1 cut(s)	709
AcuI	CTGAAG	2 cut(s)	551, 914
AfaI	GTAC	3 cut(s)	104, 239, 910
AfiI	CCNNNNNNNGG	2 cut(s)	424, 703
AgsI	TTSAA	4 cut(s)	11, 44, 494, 596
AjiI	CACGTC	1 cut(s)	682
AluBI	AGCT	5 cut(s)	14, 200, 553, 725, 788
AluI	AGCT	5 cut(s)	14, 200, 553, 725, 788
Alw26I	GTCTC	5 cut(s)	236, 270, 430, 487, 606
AlwI	GGATC	1 cut(s)	373
AlwNI	CAGNNNCTG	1 cut(s)	725
AoxI	GGCC	2 cut(s)	639, 694
ApeKI	GCWGC	4 cut(s)	140, 388, 722, 725
ApoI	RAATTY	1 cut(s)	709
AspLEI	GCGC	3 cut(s)	654, 679, 730
AspS9I	GGNCC	1 cut(s)	921
AsuHPI	GGTGA	2 cut(s)	14, 589
AvaII	GGWCC	1 cut(s)	921
BbvCI	CCTCAGC	1 cut(s)	315
BbvI	GCAGC	4 cut(s)	152, 400, 712, 734
BccI	CCATC	4 cut(s)	49, 109, 697, 785
BceAI	ACGGC	2 cut(s)	109, 154
BcgI	CGANNNNNNTGC	2 cut(s)	722, 756
BclI	TGATCA	1 cut(s)	193
BcoDI	GTCTC	5 cut(s)	236, 270, 430, 487, 606
BfaI	CTAG	2 cut(s)	440, 674
BfmI	CTRYAG	1 cut(s)	717
BglI	GCCNNNNNGGC	1 cut(s)	892
BisI	GCNGC	7 cut(s)	138, 141, 389, 636, 639, 723, 726
BlpI	GCTNAGC	1 cut(s)	15
BlsI	GCNGC	7 cut(s)	139, 142, 390, 637, 640, 724, 727
Bme18I	GGWCC	1 cut(s)	921
BmgBI	CACGTC	1 cut(s)	682
BmgT120I	GGNCC	1 cut(s)	921
BmiI	GGNNCC	2 cut(s)	312, 922
BmsI	GCATC	4 cut(s)	28, 260, 730, 904
Bpu10I	CCTNAGC	1 cut(s)	315
Bpu1102I	GCTNAGC	1 cut(s)	15
BpuEI	CTTGAG	1 cut(s)	467
Bsa29I	ATCGAT	2 cut(s)	209, 406
BsaAI	YACGTR	1 cut(s)	237
BsaI	GGTCTC	1 cut(s)	236
BsaJI	CCNNGG	1 cut(s)	636
BsaWI	WCCGGW	2 cut(s)	122, 335
Bsc4I	CCNNNNNNNGG	2 cut(s)	424, 703
Bse1I	ACTGG	1 cut(s)	941
Bse3DI	GCAATG	2 cut(s)	366, 411
BseCI	ATCGAT	2 cut(s)	209, 406
BseDI	CCNNGG	1 cut(s)	636
BseGI	GGATG	2 cut(s)	549, 846
BseLI	CCNNNNNNNGG	2 cut(s)	424, 703
BseMI	GCAATG	2 cut(s)	366, 411
BseMII	CTCAG	3 cut(s)	29, 62, 329
BseNI	ACTGG	1 cut(s)	941
BseXI	GCAGC	4 cut(s)	152, 400, 712, 734
BseYI	CCCAGC	1 cut(s)	417
Bsh1236I	CGCG	1 cut(s)	638
Bsh1285I	CGRYCG	1 cut(s)	272
BshFI	GGCC	2 cut(s)	641, 696
BshVI	ATCGAT	2 cut(s)	209, 406
BsiEI	CGRYCG	1 cut(s)	272
BsiSI	CCGG	3 cut(s)	123, 152, 336
BslI	CCNNNNNNNGG	2 cut(s)	424, 703
BsmAI	GTCTC	5 cut(s)	236, 270, 430, 487, 606
BsmI	GAATGC	1 cut(s)	967
BsnI	GGCC	2 cut(s)	641, 696
Bso31I	GGTCTC	1 cut(s)	236
Bsp1407I	TGTACA	2 cut(s)	102, 908
Bsp143I	GATC	3 cut(s)	193, 378, 403
Bsp1720I	GCTNAGC	1 cut(s)	15
BspANI	GGCC	2 cut(s)	641, 696
BspCNI	CTCAG	3 cut(s)	28, 61, 328
BspDI	ATCGAT	2 cut(s)	209, 406
BspFNI	CGCG	1 cut(s)	638
BspHI	TCATGA	1 cut(s)	957
BspLI	GGNNCC	2 cut(s)	312, 922
BspPI	GGATC	1 cut(s)	373
BspTNI	GGTCTC	1 cut(s)	236
BsrDI	GCAATG	2 cut(s)	366, 411
BsrGI	TGTACA	2 cut(s)	102, 908
BsrI	ACTGG	1 cut(s)	941
BssECI	CCNNGG	1 cut(s)	636
BssMI	GATC	3 cut(s)	193, 378, 403
Bst4CI	ACNGT	2 cut(s)	310, 820
BstAPI	GCANNNNNTGC	1 cut(s)	768
BstAUI	TGTACA	2 cut(s)	102, 908
BstBAI	YACGTR	1 cut(s)	237
BstC8I	GCNNGC	4 cut(s)	551, 893, 967, 971
BstDEI	CTNAG	5 cut(s)	15, 48, 201, 315, 987
BstDSI	CCRYGG	1 cut(s)	636
BstF5I	GGATG	2 cut(s)	549, 846
BstFNI	CGCG	1 cut(s)	638
BstHHI	GCGC	3 cut(s)	654, 679, 730
BstKTI	GATC	3 cut(s)	196, 381, 406
BstMAI	GTCTC	5 cut(s)	236, 270, 430, 487, 606
BstMBI	GATC	3 cut(s)	193, 378, 403
BstMCI	CGRYCG	1 cut(s)	272
BstMWI	GCNNNNNNNGC	6 cut(s)	11, 86, 693, 722, 768, 892
BstNSI	RCATGY	1 cut(s)	977
BstSFI	CTRYAG	1 cut(s)	717
BstUI	CGCG	1 cut(s)	638
BstV1I	GCAGC	4 cut(s)	152, 400, 712, 734
BstX2I	RGATCY	1 cut(s)	378
BstYI	RGATCY	1 cut(s)	378
Bsu15I	ATCGAT	2 cut(s)	209, 406
BsuRI	GGCC	2 cut(s)	641, 696
BsuTUI	ATCGAT	2 cut(s)	209, 406
BtgI	CCRYGG	1 cut(s)	636
BtgZI	GCGATG	1 cut(s)	232
BtrI	CACGTC	1 cut(s)	682
BtsCI	GGATG	2 cut(s)	549, 846
Cac8I	GCNNGC	4 cut(s)	551, 893, 967, 971
CaiI	CAGNNNCTG	1 cut(s)	725
CciI	TCATGA	1 cut(s)	957
CfoI	GCGC	3 cut(s)	654, 679, 730
Cfr13I	GGNCC	1 cut(s)	921
Cfr42I	CCGCGG	1 cut(s)	639
ClaI	ATCGAT	2 cut(s)	209, 406
Csp6I	GTAC	3 cut(s)	103, 238, 909
CspCI	CAANNNNNGTGG	2 cut(s)	835, 870
CviAII	CATG	5 cut(s)	750, 776, 888, 958, 974
CviQI	GTAC	3 cut(s)	103, 238, 909
DdeI	CTNAG	5 cut(s)	15, 48, 201, 315, 987
DpnI	GATC	3 cut(s)	195, 380, 405
DpnII	GATC	3 cut(s)	193, 378, 403
EaeI	YGGCCR	1 cut(s)	639
Eco31I	GGTCTC	1 cut(s)	236
Eco47I	GGWCC	1 cut(s)	921
Eco57I	CTGAAG	2 cut(s)	551, 914
FaeI	CATG	5 cut(s)	753, 779, 891, 961, 977
FatI	CATG	5 cut(s)	749, 775, 887, 957, 973
FauNDI	CATATG	1 cut(s)	165
FbaI	TGATCA	1 cut(s)	193
Fnu4HI	GCNGC	7 cut(s)	138, 141, 389, 636, 639, 723, 726
FokI	GGATG	2 cut(s)	556, 853
Fsp4HI	GCNGC	7 cut(s)	138, 141, 389, 636, 639, 723, 726
FspBI	CTAG	2 cut(s)	440, 674
GlaI	GCGC	3 cut(s)	653, 678, 729
GluI	GCNGC	7 cut(s)	138, 141, 389, 636, 639, 723, 726
GsaI	CCCAGC	1 cut(s)	421
HaeIII	GGCC	2 cut(s)	641, 696
HapII	CCGG	3 cut(s)	123, 152, 336
HhaI	GCGC	3 cut(s)	654, 679, 730
Hin1II	CATG	5 cut(s)	753, 779, 891, 961, 977
Hin6I	GCGC	3 cut(s)	652, 677, 728
HinP1I	GCGC	3 cut(s)	652, 677, 728
HindIII	AAGCTT	1 cut(s)	551
HinfI	GANTC	8 cut(s)	119, 278, 408, 467, 501, 746, 866, 950
HpaII	CCGG	3 cut(s)	123, 152, 336
HphI	GGTGA	2 cut(s)	14, 589
Hpy166II	GTNNAC	1 cut(s)	924
Hpy188I	TCNGA	5 cut(s)	261, 378, 397, 603, 933
Hpy188III	TCNNGA	7 cut(s)	273, 356, 471, 494, 505, 569, 958
Hpy8I	GTNNAC	1 cut(s)	924
HpyAV	CCTTC	3 cut(s)	453, 686, 938
HpyCH4III	ACNGT	2 cut(s)	310, 820
HpyCH4IV	ACGT	2 cut(s)	236, 681
HpyCH4V	TGCA	4 cut(s)	810, 846, 891, 973
HpyF10VI	GCNNNNNNNGC	6 cut(s)	11, 86, 693, 722, 768, 892
HpyF3I	CTNAG	5 cut(s)	15, 48, 201, 315, 987
HpySE526I	ACGT	2 cut(s)	236, 681
Hsp92II	CATG	5 cut(s)	753, 779, 891, 961, 977
HspAI	GCGC	3 cut(s)	652, 677, 728
Ksp22I	TGATCA	1 cut(s)	193
KspI	CCGCGG	1 cut(s)	639
Kzo9I	GATC	3 cut(s)	193, 378, 403
LmnI	GCTCC	2 cut(s)	262, 659
LpnPI	CCDG	9 cut(s)	125, 136, 165, 349, 431, 554, 877, 954, 979
Lsp1109I	GCAGC	4 cut(s)	152, 400, 712, 734
LweI	GCATC	4 cut(s)	28, 260, 730, 904
MaeI	CTAG	2 cut(s)	440, 674
MaeII	ACGT	2 cut(s)	236, 681
MalI	GATC	3 cut(s)	195, 380, 405
MboI	GATC	3 cut(s)	193, 378, 403
MboII	GAAGA	5 cut(s)	334, 520, 557, 701, 746
MflI	RGATCY	1 cut(s)	378
MluCI	AATT	9 cut(s)	301, 489, 512, 556, 643, 658, 709, 934, 979
MlyI	GAGTC	3 cut(s)	272, 755, 875
MmeI	TCCRAC	2 cut(s)	375, 406
MnlI	CCTC	4 cut(s)	324, 442, 534, 843
MseI	TTAA	4 cut(s)	284, 297, 555, 978
MspA1I	CMGCKG	2 cut(s)	638, 725
MspI	CCGG	3 cut(s)	123, 152, 336
Mva1269I	GAATGC	1 cut(s)	967
MvnI	CGCG	1 cut(s)	638
MwoI	GCNNNNNNNGC	6 cut(s)	11, 86, 693, 722, 768, 892
NdeI	CATATG	1 cut(s)	165
NdeII	GATC	3 cut(s)	193, 378, 403
NlaIII	CATG	5 cut(s)	753, 779, 891, 961, 977
NlaIV	GGNNCC	2 cut(s)	312, 922
NmeAIII	GCCGAG	1 cut(s)	464
NspI	RCATGY	1 cut(s)	977
PagI	TCATGA	1 cut(s)	957
PcsI	WCGNNNNNNNCGW	1 cut(s)	278
PctI	GAATGC	1 cut(s)	967
PfeI	GAWTC	5 cut(s)	119, 408, 467, 501, 950
PflMI	CCANNNNNTGG	1 cut(s)	703
PkrI	GCNGC	7 cut(s)	139, 142, 390, 637, 640, 724, 727
PleI	GAGTC	3 cut(s)	272, 754, 874
PpsI	GAGTC	3 cut(s)	272, 754, 874
Ppu21I	YACGTR	1 cut(s)	237
PspFI	CCCAGC	1 cut(s)	417
PspN4I	GGNNCC	2 cut(s)	312, 922
PspPI	GGNCC	1 cut(s)	921
PstNI	CAGNNNCTG	1 cut(s)	725
PsuI	RGATCY	1 cut(s)	378
PvuII	CAGCTG	1 cut(s)	725
RsaI	GTAC	3 cut(s)	104, 239, 910
RsaNI	GTAC	3 cut(s)	103, 238, 909
SacII	CCGCGG	1 cut(s)	639
SaqAI	TTAA	4 cut(s)	284, 297, 555, 978
SatI	GCNGC	7 cut(s)	138, 141, 389, 636, 639, 723, 726
Sau3AI	GATC	3 cut(s)	193, 378, 403
Sau96I	GGNCC	1 cut(s)	921
SchI	GAGTC	3 cut(s)	272, 755, 875
SetI	ASST	9 cut(s)	16, 202, 239, 555, 684, 727, 790, 854, 876
SfaNI	GCATC	4 cut(s)	28, 260, 730, 904
SfcI	CTRYAG	1 cut(s)	717
Sfr303I	CCGCGG	1 cut(s)	639
SgrBI	CCGCGG	1 cut(s)	639
SinI	GGWCC	1 cut(s)	921
SmlI	CTYRAG	1 cut(s)	446
SmoI	CTYRAG	1 cut(s)	446
Sse9I	AATT	9 cut(s)	301, 489, 512, 556, 643, 658, 709, 934, 979
SspMI	CTAG	2 cut(s)	440, 674
TaaI	ACNGT	2 cut(s)	310, 820
TaiI	ACGT	2 cut(s)	239, 684
TaqI	TCGA	4 cut(s)	209, 272, 357, 406
TasI	AATT	9 cut(s)	301, 489, 512, 556, 643, 658, 709, 934, 979
TatI	WGTACW	2 cut(s)	102, 908
TauI	GCSGC	3 cut(s)	140, 638, 641
TfiI	GAWTC	5 cut(s)	119, 408, 467, 501, 950
Tru1I	TTAA	4 cut(s)	284, 297, 555, 978
Tru9I	TTAA	4 cut(s)	284, 297, 555, 978
TseI	GCWGC	4 cut(s)	140, 388, 722, 725
TspDTI	ATGAA	6 cut(s)	61, 227, 302, 400, 792, 974
TspGWI	ACGGA	1 cut(s)	440
Van91I	CCANNNNNTGG	1 cut(s)	703
VpaK11BI	GGWCC	1 cut(s)	921
XapI	RAATTY	1 cut(s)	709
XceI	RCATGY	1 cut(s)	977
XspI	CTAG	2 cut(s)	440, 674

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