Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4C

Orthogroup ID

OG0009993

Physical Location & Seq

Genomic Coordinates Forward (+)

7949280 .. 7949840

Gene Structure 561 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4CG039100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 561 bp

ATGAATGTGTATCCATGGCCTCCGAGGTCTTACACGTGTAGCTTCTGCAAGAGAGAATTCAAATCTGCTCAAGCTCTGGGTGGCCATATGAATGTTCACAGGAAAGACCGAGCCAGGCTCAGAAGCTCACCCCCAACCGATTTTATTGGTCAGTACACTCACAGTACTATACTTAATCTCAACCTCAAACCTAACCCTAACCCTAATTTCGCATCCTCACCACCACCATCATCATCTCCCTTCTCTTCTGTTTCAACTCGGCAGCTCCCACCGTTAACTACTAGCTCTAGCTCTGTACCTTCTTGGATATCACAACCTTCTCATCCCCCTCCTACATTTCCATCACCATTTGATACTTGCCATAGTGAAAACATGAAATGGGCTGTGGGTGGTACCCTTTCCACTCCTTTAAACCTCAAAACTTTGGATTTAAGTACTCAAATGAAGATTAATACAGAGTCTCAAGAAGATGGATGCATGAAATTGGAATTGGAAATTGGTGTTCTTGGCGGTAACTCAAAGGATGACATCGATTTGGAGCTTCGATTAGGCTACTCCTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0003002 GO:0003006 GO:0003674 GO:0003676 GO:0003677 GO:0003700 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006355 GO:0007154 GO:0007165 GO:0007275 GO:0007389 GO:0008150 GO:0008361 GO:0009653 GO:0009719 GO:0009725 GO:0009755 GO:0009791 GO:0009889 GO:0009908 GO:0009987 GO:0010033 GO:0010093 GO:0010468 GO:0010556 GO:0016043 GO:0019219 GO:0019222 GO:0022414 GO:0023052 GO:0031323 GO:0031326 GO:0032501 GO:0032502 GO:0032535 GO:0032870 GO:0042127 GO:0042221 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464 GO:0048367 GO:0048437 GO:0048444 GO:0048449 GO:0048608 GO:0048646 GO:0048731 GO:0048856 GO:0048859 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051252 GO:0051716 GO:0060255 GO:0061458 GO:0065007 GO:0065008 GO:0070887 GO:0071310 GO:0071495 GO:0071840 GO:0080090 GO:0090066 GO:0090567 GO:0090691 GO:0090696 GO:0090697 GO:0090698 GO:0090701 GO:0097159 GO:0099402 GO:0140110 GO:1901363 GO:1903506 GO:1905392 GO:1905393 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

zf-C2H2_6

Protein Analysis

186

Amino Acids

20.49

Weight (kDa)

8.37

Isoelectric Point (pI)

59.96

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-C2H2_6	PF13912	11 - 35	3.5e-07	C2H2-type zinc 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: OG0009993)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G23130
fragaria_vesca	FvH4_3g12221 FvH4_3g12221 FvH4_3g12221 FvH4_3g12221 FvH4_3g12221 FvH4_4g03010
malus_domestica	MD13G1209400.v1.1 MD16G1212200.v1.1
prunus_persica	Prupe.1G034100_v2.0.a1 Prupe.1G034100_v2.0.a1
pyrus_communis	pycom16g17820
rosa_chinensis	RchiOBHm_Chr4g0391201
rosa_laevigata	RLG00000009878
rosa_multiflora	Rmu_sc0000040.1_g000012
rosa_roxburghii	Rroxscaffold_5G00336990
rosa_rugosa	Rorug03G0335100
rosa_samantha	Rh4BG030800 Rh4CG039100 Rh4DG033500
rosa_wichuraiana	Rw4G002810

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc65I	GGTACC	1 cut(s)	392
AccB1I	GGYRCC	1 cut(s)	392
AciI	CCGC	1 cut(s)	510
AcoI	YGGCCR	1 cut(s)	82
AcsI	RAATTY	1 cut(s)	56
AcvI	CACGTG	1 cut(s)	36
AfaI	GTAC	5 cut(s)	155, 166, 297, 394, 436
AflIII	ACRYGT	2 cut(s)	33, 35
AgsI	TTSAA	2 cut(s)	61, 255
AjnI	CCWGG	1 cut(s)	113
AjuI	GAANNNNNNNTTGG	4 cut(s)	473, 480, 505, 512
AluBI	AGCT	7 cut(s)	42, 74, 126, 265, 285, 291, 541
AluI	AGCT	7 cut(s)	42, 74, 126, 265, 285, 291, 541
Alw26I	GTCTC	1 cut(s)	465
AoxI	GGCC	2 cut(s)	17, 82
ApeKI	GCWGC	1 cut(s)	262
ApoI	RAATTY	1 cut(s)	56
AseI	ATTAAT	1 cut(s)	450
Asp718I	GGTACC	1 cut(s)	392
AsuHPI	GGTGA	3 cut(s)	120, 210, 336
BalI	TGGCCA	1 cut(s)	84
BanI	GGYRCC	1 cut(s)	392
BbrPI	CACGTG	1 cut(s)	36
BbvI	GCAGC	1 cut(s)	274
BccI	CCATC	3 cut(s)	235, 349, 464
BciT130I	CCWGG	1 cut(s)	115
BciVI	GTATCC	1 cut(s)	21
BcoDI	GTCTC	1 cut(s)	465
BfaI	CTAG	3 cut(s)	282, 288, 559
BfuI	GTATCC	1 cut(s)	21
BisI	GCNGC	1 cut(s)	263
BlsI	GCNGC	1 cut(s)	264
BmcAI	AGTACT	2 cut(s)	166, 436
Bme1390I	CCNGG	1 cut(s)	115
BmiI	GGNNCC	1 cut(s)	394
BmrFI	CCNGG	1 cut(s)	115
BmsI	GCATC	2 cut(s)	221, 464
BplI	GAGNNNNNCTC	2 cut(s)	102, 134
BpuEI	CTTGAG	2 cut(s)	54, 447
Bsa29I	ATCGAT	1 cut(s)	531
BsaAI	YACGTR	1 cut(s)	36
BsaJI	CCNNGG	2 cut(s)	14, 23
BseBI	CCWGG	1 cut(s)	115
BseCI	ATCGAT	1 cut(s)	531
BseDI	CCNNGG	2 cut(s)	14, 23
BseGI	GGATG	4 cut(s)	212, 322, 479, 529
BseMII	CTCAG	1 cut(s)	133
BseXI	GCAGC	1 cut(s)	274
BshFI	GGCC	2 cut(s)	19, 84
BshNI	GGYRCC	1 cut(s)	392
BshVI	ATCGAT	1 cut(s)	531
BsmAI	GTCTC	1 cut(s)	465
BsnI	GGCC	2 cut(s)	19, 84
Bsp19I	CCATGG	1 cut(s)	14
BspACI	CCGC	1 cut(s)	510
BspANI	GGCC	2 cut(s)	19, 84
BspCNI	CTCAG	1 cut(s)	132
BspDI	ATCGAT	1 cut(s)	531
BspLI	GGNNCC	1 cut(s)	394
BspT107I	GGYRCC	1 cut(s)	392
BssECI	CCNNGG	2 cut(s)	14, 23
BssT1I	CCWWGG	1 cut(s)	14
Bst2UI	CCWGG	1 cut(s)	115
Bst4CI	ACNGT	2 cut(s)	164, 273
Bst6I	CTCTTC	1 cut(s)	250
BstBAI	YACGTR	1 cut(s)	36
BstDEI	CTNAG	1 cut(s)	119
BstDSI	CCRYGG	1 cut(s)	14
BstF5I	GGATG	4 cut(s)	212, 322, 479, 529
BstMAI	GTCTC	1 cut(s)	465
BstNI	CCWGG	1 cut(s)	115
BstSCI	CCNGG	1 cut(s)	113
BstV1I	GCAGC	1 cut(s)	274
Bsu15I	ATCGAT	1 cut(s)	531
BsuI	GTATCC	1 cut(s)	21
BsuRI	GGCC	2 cut(s)	19, 84
BsuTUI	ATCGAT	1 cut(s)	531
BtgI	CCRYGG	1 cut(s)	14
BtsCI	GGATG	4 cut(s)	212, 322, 479, 529
ClaI	ATCGAT	1 cut(s)	531
Csp6I	GTAC	5 cut(s)	154, 165, 296, 393, 435
CviAII	CATG	3 cut(s)	15, 373, 478
CviQI	GTAC	5 cut(s)	154, 165, 296, 393, 435
DdeI	CTNAG	1 cut(s)	119
DraI	TTTAAA	1 cut(s)	411
EaeI	YGGCCR	1 cut(s)	82
Eam1104I	CTCTTC	1 cut(s)	250
EarI	CTCTTC	1 cut(s)	250
Eco130I	CCWWGG	1 cut(s)	14
Eco32I	GATATC	1 cut(s)	309
Eco72I	CACGTG	1 cut(s)	36
EcoRI	GAATTC	1 cut(s)	56
EcoRII	CCWGG	1 cut(s)	113
EcoRV	GATATC	1 cut(s)	309
EcoT14I	CCWWGG	1 cut(s)	14
EcoT22I	ATGCAT	1 cut(s)	479
ErhI	CCWWGG	1 cut(s)	14
FaeI	CATG	3 cut(s)	18, 376, 481
FaiI	YATR	7 cut(s)	16, 87, 89, 170, 363, 374, 479
FatI	CATG	3 cut(s)	14, 372, 477
FauNDI	CATATG	1 cut(s)	87
Fnu4HI	GCNGC	1 cut(s)	263
FokI	GGATG	4 cut(s)	199, 309, 486, 536
Fsp4HI	GCNGC	1 cut(s)	263
FspBI	CTAG	3 cut(s)	282, 288, 559
GluI	GCNGC	1 cut(s)	263
HaeIII	GGCC	2 cut(s)	19, 84
Hin1II	CATG	3 cut(s)	18, 376, 481
HincII	GTYRAC	1 cut(s)	276
HindII	GTYRAC	1 cut(s)	276
HinfI	GANTC	1 cut(s)	458
HpaI	GTTAAC	1 cut(s)	276
HphI	GGTGA	3 cut(s)	120, 210, 336
Hpy166II	GTNNAC	3 cut(s)	97, 156, 276
Hpy188I	TCNGA	2 cut(s)	24, 122
Hpy188III	TCNNGA	1 cut(s)	464
Hpy8I	GTNNAC	3 cut(s)	97, 156, 276
HpyAV	CCTTC	3 cut(s)	250, 309, 327
HpyCH4III	ACNGT	2 cut(s)	164, 273
HpyCH4IV	ACGT	1 cut(s)	35
HpyCH4V	TGCA	2 cut(s)	48, 477
HpyF3I	CTNAG	1 cut(s)	119
HpySE526I	ACGT	1 cut(s)	35
Hsp92II	CATG	3 cut(s)	18, 376, 481
KpnI	GGTACC	1 cut(s)	396
KspAI	GTTAAC	1 cut(s)	276
LmnI	GCTCC	2 cut(s)	270, 538
LpnPI	CCDG	4 cut(s)	62, 85, 100, 127
Lsp1109I	GCAGC	1 cut(s)	274
LweI	GCATC	2 cut(s)	221, 464
MaeI	CTAG	3 cut(s)	282, 288, 559
MaeII	ACGT	1 cut(s)	35
MaeIII	GTNAC	1 cut(s)	512
MboII	GAAGA	3 cut(s)	237, 457, 479
MlsI	TGGCCA	1 cut(s)	84
MluCI	AATT	5 cut(s)	56, 205, 482, 488, 495
MluNI	TGGCCA	1 cut(s)	84
MlyI	GAGTC	1 cut(s)	467
MnlI	CCTC	6 cut(s)	18, 30, 194, 226, 339, 425
Mox20I	TGGCCA	1 cut(s)	84
Mph1103I	ATGCAT	1 cut(s)	479
MscI	TGGCCA	1 cut(s)	84
MseI	TTAA	5 cut(s)	174, 275, 410, 431, 450
MslI	CAYNNNNRTG	1 cut(s)	90
Msp20I	TGGCCA	1 cut(s)	84
MspR9I	CCNGG	1 cut(s)	115
MvaI	CCWGG	1 cut(s)	115
NcoI	CCATGG	1 cut(s)	14
NdeI	CATATG	1 cut(s)	87
NlaIII	CATG	3 cut(s)	18, 376, 481
NlaIV	GGNNCC	1 cut(s)	394
NmeAIII	GCCGAG	1 cut(s)	238
NsiI	ATGCAT	1 cut(s)	479
PkrI	GCNGC	1 cut(s)	264
PleI	GAGTC	1 cut(s)	466
PmaCI	CACGTG	1 cut(s)	36
PmlI	CACGTG	1 cut(s)	36
PpsI	GAGTC	1 cut(s)	466
Ppu21I	YACGTR	1 cut(s)	36
PshBI	ATTAAT	1 cut(s)	450
Psp6I	CCWGG	1 cut(s)	113
PspCI	CACGTG	1 cut(s)	36
PspGI	CCWGG	1 cut(s)	113
PspN4I	GGNNCC	1 cut(s)	394
RsaI	GTAC	5 cut(s)	155, 166, 297, 394, 436
RsaNI	GTAC	5 cut(s)	154, 165, 296, 393, 435
RseI	CAYNNNNRTG	1 cut(s)	90
SaqAI	TTAA	5 cut(s)	174, 275, 410, 431, 450
SatI	GCNGC	1 cut(s)	263
ScaI	AGTACT	2 cut(s)	166, 436
SchI	GAGTC	1 cut(s)	467
ScrFI	CCNGG	1 cut(s)	115
SfaNI	GCATC	2 cut(s)	221, 464
SmiMI	CAYNNNNRTG	1 cut(s)	90
SmlI	CTYRAG	2 cut(s)	69, 462
SmoI	CTYRAG	2 cut(s)	69, 462
Sse9I	AATT	5 cut(s)	56, 205, 482, 488, 495
SsiI	CCGC	1 cut(s)	510
SspMI	CTAG	3 cut(s)	282, 288, 559
StyD4I	CCNGG	1 cut(s)	113
StyI	CCWWGG	1 cut(s)	14
TaaI	ACNGT	2 cut(s)	164, 273
TaiI	ACGT	1 cut(s)	38
TaqI	TCGA	2 cut(s)	531, 544
TaqII	GACCGA	1 cut(s)	123
TasI	AATT	5 cut(s)	56, 205, 482, 488, 495
TatI	WGTACW	3 cut(s)	153, 164, 434
Tru1I	TTAA	5 cut(s)	174, 275, 410, 431, 450
Tru9I	TTAA	5 cut(s)	174, 275, 410, 431, 450
TseI	GCWGC	1 cut(s)	262
TspDTI	ATGAA	5 cut(s)	17, 104, 389, 458, 494
VspI	ATTAAT	1 cut(s)	450
XapI	RAATTY	1 cut(s)	56
XspI	CTAG	3 cut(s)	282, 288, 559
ZrmI	AGTACT	2 cut(s)	166, 436
Zsp2I	ATGCAT	1 cut(s)	479

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