Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3B

Orthogroup ID

OG0015025

Physical Location & Seq

Genomic Coordinates Reverse (-)

16574972 .. 16576651

Gene Structure 1680 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3BG187800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 942 bp

ATGATGATGATGATGATGGAGGCTGCAAACCTTGAGGAGGATCAGAACCAGATGATGATCATCAAAGGAAAGCGCACCAAGCGTCCGAGGCTGTCATCTCCGATTGTGTTAACAACGACAGCTTCAAGCTCATCTAGTCCAGGGGGTGGTGATGATGTTGAAGATCATCATCATCAATTGGGTATGATTAGTACTCCAATTAGAGTTAGTGATCAAGATGATGAGACAACCGCCTCGCCTGCCACCTCAGCTGAATTCACAGAGATGAGTACTACAGAAGAAGAAGAAGACATGGCAAACTGTTTGATACTTTTGGCTCAGTCGGGTCAGACACAAATCCGAAAAGTTCAAGAACAGCAACAACCTATTAAGGCTGTTGCTGCTGCTGATACAGCTCCTGGGTTATATGTGTATGAGTGCAAGACATGTAACAGGTGCTTTTCTTCGTTCCAAGCACTTGGTGGGCATAGAGCAAGTCACAAGAAACCCAAGGCTAGTAATGTCATCAACACAACACAAGCACAGCCGAAGAAAGAGTTGTCGTGTATGGAAGATCAAGATGAGTATGATCGTCGTTTTAACAACAACACAACAAGCACAACGCTTTCGTTACAAATATCGAACAGGGGTTTTGGCAATAGCAAAGGCAACAAGGTTCATGAGTGTTCAGTGTGTGGGGCTGAGTTCAGCTCTGGTCAAGCTCTTGGGGGTCATATGAGGAGGCACAGAACTTCCATGAACTCTACAACAACAGCACAAACATTGAGTAGTCCGCAACCTCAAGCACCTAACAAGAGGCCAAGAAGTGTTTTAGAGTTAGATCTTAACCTTCCTGCACCAGAAGAAGAGCGGCTCGAAATGACCAAATTGCCATTTTCCAGCTCCAAGAAGGAACAAGTCATTGTCTTCTCTGCCTCTCCTTTGGTGGGATGCCATTACTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003677 GO:0003700 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006355 GO:0008150 GO:0009889 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0031323 GO:0031326 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043565 GO:0044424 GO:0044464 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0060255 GO:0065007 GO:0080090 GO:0097159 GO:0140110 GO:1901363 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

zf-C2H2_6

Protein Analysis

313

Amino Acids

34.39

Weight (kDa)

6.16

Isoelectric Point (pI)

64.64

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-C2H2_6	PF13912	137 - 163	9.6e-11	C2H2-type zinc finger
zf-C2H2_6	PF13912	219 - 244	9.4e-13	C2H2-type zinc 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: OG0015025)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G03510
fragaria_vesca	FvH4_6g16820
malus_domestica	MD04G1089100.v1.1 MD12G1107100.v1.1
prunus_persica	Prupe.7G125800_v2.0.a1
pyrus_communis	pycom12g10740
rosa_chinensis	RchiOBHm_Chr3g0470831
rosa_laevigata	RLG00000024242
rosa_multiflora	Rmu_sc0002790.1_g000023
rosa_roxburghii	Rroxscaffold_6G00410500
rosa_rugosa	Rorug03G0113100
rosa_samantha	Rh3AG162700 Rh3BG187800 Rh3CG177800 Rh3DG188000
rosa_wichuraiana	Rw3G015320

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	146
AccBSI	CCGCTC	1 cut(s)	850
AciI	CCGC	3 cut(s)	231, 773, 850
AclWI	GGATC	1 cut(s)	48
AcsI	RAATTY	1 cut(s)	254
AdeI	CACNNNGTG	1 cut(s)	461
AfaI	GTAC	2 cut(s)	193, 271
AfiI	CCNNNNNNNGG	3 cut(s)	37, 146, 926
AflIII	ACRYGT	1 cut(s)	425
AgsI	TTSAA	3 cut(s)	126, 161, 350
AjnI	CCWGG	2 cut(s)	139, 397
AluBI	AGCT	7 cut(s)	122, 129, 251, 395, 690, 701, 882
AluI	AGCT	7 cut(s)	122, 129, 251, 395, 690, 701, 882
Alw26I	GTCTC	1 cut(s)	218
AlwI	GGATC	1 cut(s)	48
AlwNI	CAGNNNCTG	1 cut(s)	398
AoxI	GGCC	1 cut(s)	797
ApeKI	GCWGC	3 cut(s)	23, 380, 383
ApoI	RAATTY	1 cut(s)	254
AspLEI	GCGC	1 cut(s)	75
AsuHPI	GGTGA	1 cut(s)	161
BbsI	GAAGAC	2 cut(s)	294, 898
BbvCI	CCTCAGC	1 cut(s)	247
BbvI	GCAGC	3 cut(s)	10, 367, 370
BccI	CCATC	1 cut(s)	10
BciT130I	CCWGG	2 cut(s)	141, 399
BclI	TGATCA	2 cut(s)	57, 211
BcoDI	GTCTC	1 cut(s)	218
BfaI	CTAG	2 cut(s)	135, 495
BfmI	CTRYAG	1 cut(s)	273
BglII	AGATCT	1 cut(s)	820
BisI	GCNGC	4 cut(s)	24, 381, 384, 851
BlsI	GCNGC	4 cut(s)	25, 382, 385, 852
BmcAI	AGTACT	2 cut(s)	193, 271
Bme1390I	CCNGG	2 cut(s)	141, 399
BmrFI	CCNGG	2 cut(s)	141, 399
BmsI	GCATC	1 cut(s)	920
BpiI	GAAGAC	2 cut(s)	294, 898
BplI	GAGNNNNNCTC	2 cut(s)	674, 706
Bpu10I	CCTNAGC	1 cut(s)	247
BpuEI	CTTGAG	2 cut(s)	53, 765
BsaBI	GATNNNNATC	3 cut(s)	56, 59, 168
BsaJI	CCNNGG	4 cut(s)	86, 140, 398, 489
Bsc4I	CCNNNNNNNGG	3 cut(s)	37, 146, 926
Bse8I	GATNNNNATC	3 cut(s)	56, 59, 168
BseBI	CCWGG	2 cut(s)	141, 399
BseDI	CCNNGG	4 cut(s)	86, 140, 398, 489
BseGI	GGATG	1 cut(s)	935
BseJI	GATNNNNATC	3 cut(s)	56, 59, 168
BseLI	CCNNNNNNNGG	3 cut(s)	37, 146, 926
BseMII	CTCAG	3 cut(s)	261, 332, 672
BseRI	GAGGAG	2 cut(s)	50, 733
BseXI	GCAGC	3 cut(s)	10, 367, 370
BsgI	GTGCAG	1 cut(s)	819
BshFI	GGCC	1 cut(s)	799
BslI	CCNNNNNNNGG	3 cut(s)	37, 146, 926
BsmAI	GTCTC	1 cut(s)	218
BsnI	GGCC	1 cut(s)	799
Bsp143I	GATC	7 cut(s)	40, 57, 163, 211, 553, 568, 820
BspACI	CCGC	3 cut(s)	231, 773, 850
BspANI	GGCC	1 cut(s)	799
BspCNI	CTCAG	3 cut(s)	260, 331, 673
BspHI	TCATGA	1 cut(s)	658
BspPI	GGATC	1 cut(s)	48
BspQI	GCTCTTC	1 cut(s)	840
BsrBI	CCGCTC	1 cut(s)	850
BssECI	CCNNGG	4 cut(s)	86, 140, 398, 489
BssMI	GATC	7 cut(s)	40, 57, 163, 211, 553, 568, 820
BssT1I	CCWWGG	1 cut(s)	489
Bst2UI	CCWGG	2 cut(s)	141, 399
Bst4CI	ACNGT	1 cut(s)	302
Bst6I	CTCTTC	1 cut(s)	840
BstC8I	GCNNGC	1 cut(s)	240
BstDEI	CTNAG	3 cut(s)	247, 318, 681
BstENI	CCTNNNNNAGG	1 cut(s)	35
BstF5I	GGATG	1 cut(s)	935
BstHHI	GCGC	1 cut(s)	75
BstKTI	GATC	7 cut(s)	43, 60, 166, 214, 556, 571, 823
BstMAI	GTCTC	1 cut(s)	218
BstMBI	GATC	7 cut(s)	40, 57, 163, 211, 553, 568, 820
BstMWI	GCNNNNNNNGC	6 cut(s)	79, 88, 239, 248, 380, 392
BstNI	CCWGG	2 cut(s)	141, 399
BstNSI	RCATGY	1 cut(s)	429
BstSCI	CCNGG	2 cut(s)	139, 397
BstSFI	CTRYAG	1 cut(s)	273
BstV1I	GCAGC	3 cut(s)	10, 367, 370
BstV2I	GAAGAC	2 cut(s)	294, 898
BstX2I	RGATCY	1 cut(s)	820
BstXI	CCANNNNNNTGG	1 cut(s)	458
BstYI	RGATCY	1 cut(s)	820
BsuRI	GGCC	1 cut(s)	799
BtsCI	GGATG	1 cut(s)	935
BtsIMutI	CAGTG	1 cut(s)	675
Cac8I	GCNNGC	1 cut(s)	240
CaiI	CAGNNNCTG	1 cut(s)	398
CciI	TCATGA	1 cut(s)	658
CfoI	GCGC	1 cut(s)	75
CseI	GACGC	1 cut(s)	71
Csp6I	GTAC	2 cut(s)	192, 270
CviAII	CATG	4 cut(s)	292, 426, 659, 736
CviQI	GTAC	2 cut(s)	192, 270
DdeI	CTNAG	3 cut(s)	247, 318, 681
DpnI	GATC	7 cut(s)	42, 59, 165, 213, 555, 570, 822
DpnII	GATC	7 cut(s)	40, 57, 163, 211, 553, 568, 820
DraIII	CACNNNGTG	1 cut(s)	461
Eam1104I	CTCTTC	1 cut(s)	840
EarI	CTCTTC	1 cut(s)	840
Eco130I	CCWWGG	1 cut(s)	489
EcoNI	CCTNNNNNAGG	1 cut(s)	35
EcoRI	GAATTC	1 cut(s)	254
EcoRII	CCWGG	2 cut(s)	139, 397
EcoT14I	CCWWGG	1 cut(s)	489
ErhI	CCWWGG	1 cut(s)	489
FaeI	CATG	4 cut(s)	295, 429, 662, 739
FatI	CATG	4 cut(s)	291, 425, 658, 735
FauNDI	CATATG	1 cut(s)	714
FbaI	TGATCA	2 cut(s)	57, 211
Fnu4HI	GCNGC	4 cut(s)	24, 381, 384, 851
Fsp4HI	GCNGC	4 cut(s)	24, 381, 384, 851
FspBI	CTAG	2 cut(s)	135, 495
GlaI	GCGC	1 cut(s)	74
GluI	GCNGC	4 cut(s)	24, 381, 384, 851
HaeIII	GGCC	1 cut(s)	799
HgaI	GACGC	1 cut(s)	71
HhaI	GCGC	1 cut(s)	75
Hin1II	CATG	4 cut(s)	295, 429, 662, 739
Hin6I	GCGC	1 cut(s)	73
HinP1I	GCGC	1 cut(s)	73
HincII	GTYRAC	1 cut(s)	111
HindII	GTYRAC	1 cut(s)	111
HpaI	GTTAAC	1 cut(s)	111
HphI	GGTGA	1 cut(s)	161
Hpy166II	GTNNAC	1 cut(s)	111
Hpy188I	TCNGA	5 cut(s)	45, 87, 102, 330, 341
Hpy188III	TCNNGA	4 cut(s)	215, 350, 557, 659
Hpy8I	GTNNAC	1 cut(s)	111
Hpy99I	CGWCG	1 cut(s)	576
HpyAV	CCTTC	2 cut(s)	839, 883
HpyCH4III	ACNGT	1 cut(s)	302
HpyCH4V	TGCA	3 cut(s)	26, 420, 836
HpyF10VI	GCNNNNNNNGC	6 cut(s)	79, 88, 239, 248, 380, 392
HpyF3I	CTNAG	3 cut(s)	247, 318, 681
Hsp92II	CATG	4 cut(s)	295, 429, 662, 739
HspAI	GCGC	1 cut(s)	73
Ksp22I	TGATCA	2 cut(s)	57, 211
KspAI	GTTAAC	1 cut(s)	111
Kzo9I	GATC	7 cut(s)	40, 57, 163, 211, 553, 568, 820
LguI	GCTCTTC	1 cut(s)	840
LmnI	GCTCC	2 cut(s)	400, 887
Lsp1109I	GCAGC	3 cut(s)	10, 367, 370
LweI	GCATC	1 cut(s)	920
MaeI	CTAG	2 cut(s)	135, 495
MaeIII	GTNAC	3 cut(s)	428, 476, 609
MalI	GATC	7 cut(s)	42, 59, 165, 213, 555, 570, 822
MbiI	CCGCTC	1 cut(s)	850
MboI	GATC	7 cut(s)	40, 57, 163, 211, 553, 568, 820
MfeI	CAATTG	1 cut(s)	176
MflI	RGATCY	1 cut(s)	820
MluCI	AATT	4 cut(s)	176, 198, 254, 866
MseI	TTAA	4 cut(s)	110, 369, 579, 825
MslI	CAYNNNNRTG	1 cut(s)	263
MspA1I	CMGCKG	1 cut(s)	251
MspR9I	CCNGG	2 cut(s)	141, 399
MunI	CAATTG	1 cut(s)	176
MvaI	CCWGG	2 cut(s)	141, 399
MwoI	GCNNNNNNNGC	6 cut(s)	79, 88, 239, 248, 380, 392
NdeI	CATATG	1 cut(s)	714
NdeII	GATC	7 cut(s)	40, 57, 163, 211, 553, 568, 820
NlaIII	CATG	4 cut(s)	295, 429, 662, 739
NmuCI	GTSAC	1 cut(s)	476
NspI	RCATGY	1 cut(s)	429
PagI	TCATGA	1 cut(s)	658
PciI	ACATGT	1 cut(s)	425
PciSI	GCTCTTC	1 cut(s)	840
PflMI	CCANNNNNTGG	1 cut(s)	146
PkrI	GCNGC	4 cut(s)	25, 382, 385, 852
PscI	ACATGT	1 cut(s)	425
Psp6I	CCWGG	2 cut(s)	139, 397
PspGI	CCWGG	2 cut(s)	139, 397
PstNI	CAGNNNCTG	1 cut(s)	398
PsuI	RGATCY	1 cut(s)	820
PvuII	CAGCTG	1 cut(s)	251
RsaI	GTAC	2 cut(s)	193, 271
RsaNI	GTAC	2 cut(s)	192, 270
RseI	CAYNNNNRTG	1 cut(s)	263
SapI	GCTCTTC	1 cut(s)	840
SaqAI	TTAA	4 cut(s)	110, 369, 579, 825
SatI	GCNGC	4 cut(s)	24, 381, 384, 851
Sau3AI	GATC	7 cut(s)	40, 57, 163, 211, 553, 568, 820
ScaI	AGTACT	2 cut(s)	193, 271
ScrFI	CCNGG	2 cut(s)	141, 399
SfaNI	GCATC	1 cut(s)	920
SfcI	CTRYAG	1 cut(s)	273
SmiMI	CAYNNNNRTG	1 cut(s)	263
SmlI	CTYRAG	2 cut(s)	32, 780
SmoI	CTYRAG	2 cut(s)	32, 780
Sse9I	AATT	4 cut(s)	176, 198, 254, 866
SsiI	CCGC	3 cut(s)	231, 773, 850
SspMI	CTAG	2 cut(s)	135, 495
StyD4I	CCNGG	2 cut(s)	139, 397
StyI	CCWWGG	1 cut(s)	489
TaaI	ACNGT	1 cut(s)	302
TaqI	TCGA	2 cut(s)	620, 855
TasI	AATT	4 cut(s)	176, 198, 254, 866
TatI	WGTACW	2 cut(s)	191, 269
TauI	GCSGC	1 cut(s)	853
Tru1I	TTAA	4 cut(s)	110, 369, 579, 825
Tru9I	TTAA	4 cut(s)	110, 369, 579, 825
TscAI	CASTG	1 cut(s)	675
TseFI	GTSAC	1 cut(s)	476
TseI	GCWGC	3 cut(s)	23, 380, 383
Tsp45I	GTSAC	1 cut(s)	476
TspDTI	ATGAA	2 cut(s)	647, 752
TspRI	CASTG	1 cut(s)	675
Van91I	CCANNNNNTGG	1 cut(s)	146
XagI	CCTNNNNNAGG	1 cut(s)	35
XapI	RAATTY	1 cut(s)	254
XceI	RCATGY	1 cut(s)	429
XcmI	CCANNNNNNNNNTGG	1 cut(s)	458
XspI	CTAG	2 cut(s)	135, 495
ZrmI	AGTACT	2 cut(s)	193, 271

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