Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6A

Orthogroup ID

OG0003091

Physical Location & Seq

Genomic Coordinates Reverse (-)

67661837 .. 67664724

Gene Structure 2888 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6AG504100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 744 bp

ATGCATGTGTTTAATGATGCCATAAAGTTTAATCCTAAGTGTGCTTCTTTTTTATGCATTAAGATTGAGAACCACTGTAATAGAACATGCAATTTAAACATCTTTATAACAGAGAAGGAGAATCTTTGCCTATATGGATTTCCAACCGAGCAGTGGGAAGTAAATTTGCCTGCAGAGGAGGTTCCTCCAGAGCTTCCGGAGCCAGCACTTGGTATCAACTTTGCCAGAGATGGGATGCAAGAAAAAGACTGGTTATCCTTGGTTGCTGTCCACAGTGATGCATGGTTACTTGCAGTGGCCTTTTACTTCGGTGCTAGGTTTCAATTTGATAAGACTGATAGGAAACGCCTTTTTAATATGATAAATGAGCTTCCAACTATATTCGAGATTGTTACAGGGGCAGCCAAGAAACAAGTAAAGGAGAGGTCAACAAATTCAAATCATGGCAGCAACAAACCTAAATCAAATTCGAAGAGAGGTTCTGAGTCTCAGGGAAAGTATGCAAAGGTAATGCAAGCAAGGGAAGACTATGAGGATGGCACAGAAGATGAAGATGAGGATGAGCATGGAGAGACACTATGTGGGGCTTGTGGAGAGAACTATGCATCTGATGAATTTTGGATTTGCTGCGATGTCTGTGAGAAGTGGTTCCACGGCAAGTGTGTGAAGATCACCCCAGCAAGGGCCGAGCATATTAAGCAGTACAAATGTCCATCTTGCAGCAACAAGAGATCCCGACCTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001101 GO:0003674 GO:0003676 GO:0003677 GO:0003712 GO:0003714 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0005829 GO:0006950 GO:0006970 GO:0008150 GO:0009414 GO:0009415 GO:0009628 GO:0009651 GO:0009889 GO:0009890 GO:0009892 GO:0010035 GO:0010556 GO:0010558 GO:0010605 GO:0019219 GO:0019222 GO:0031323 GO:0031324 GO:0031326 GO:0031327 GO:0035064 GO:0042221 GO:0042393 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044444 GO:0044464 GO:0045934 GO:0048519 GO:0048523 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051172 GO:0051252 GO:0051253 GO:0060255 GO:0065007 GO:0080090 GO:0097159 GO:0140030 GO:0140034 GO:0140110 GO:1901363 GO:1901700 GO:1902679 GO:1903506 GO:1903507 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Alfin PHD

Protein Analysis

247

Amino Acids

28.23

Weight (kDa)

5.72

Isoelectric Point (pI)

49.59

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Alfin	PF12165	37 - 132	2.7e-50	Alfin
PHD	PF00628	194 - 240	3.9e-09	PHD-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: OG0003091)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G42790 AT5G20510 AT5G20510
fragaria_vesca	FvH4_2g31281 FvH4_2g31281 FvH4_6g34320
malus_domestica	MD08G1069100.v1.1 MD09G1186300.v1.1 MD15G1052900.v1.1 MD17G1171200.v1.1
prunus_persica	Prupe.1G406800_v2.0.a1 Prupe.1G406800_v2.0.a1 Prupe.3G044000_v2.0.a1 Prupe.3G044000_v2.0.a1
pyrus_communis	pycom08g05690 pycom09g10350 pycom15g05060 pycom17g16870
rosa_chinensis	RchiOBHm_Chr2g0144691 RchiOBHm_Chr6g0311511 RchiOBHm_Chr7g0239581
rosa_laevigata	RLG00000006884 RLG00000010399 RLG00000020101
rosa_multiflora	Rmu_sc0000227.1_g000006 Rmu_sc0015790.1_g000007 Rmu_sc0039327.1_g000001
rosa_roxburghii	Rroxscaffold_2G00101070 Rroxscaffold_7G00157550
rosa_rugosa	Rorug02G0388800 Rorug06G0389300
rosa_samantha	Rh2BG451100 Rh6AG504100 Rh6DG506600
rosa_wichuraiana	Rw2G036050 Rw4G005730 Rw6G043900

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	107
AccB7I	CCANNNNNTGG	1 cut(s)	209
AccIII	TCCGGA	1 cut(s)	196
AclWI	GGATC	1 cut(s)	726
AcsI	RAATTY	4 cut(s)	163, 433, 466, 614
AdeI	CACNNNGTG	1 cut(s)	581
AfaI	GTAC	1 cut(s)	704
AfiI	CCNNNNNNNGG	5 cut(s)	153, 209, 231, 681, 682
AgsI	TTSAA	2 cut(s)	323, 438
AluBI	AGCT	2 cut(s)	193, 370
AluI	AGCT	2 cut(s)	193, 370
Alw26I	GTCTC	2 cut(s)	492, 566
AlwI	GGATC	1 cut(s)	726
Aor13HI	TCCGGA	1 cut(s)	196
AoxI	GGCC	2 cut(s)	297, 684
ApeKI	GCWGC	4 cut(s)	401, 447, 627, 720
ApoI	RAATTY	4 cut(s)	163, 433, 466, 614
Asp700I	GAANNNNTTC	1 cut(s)	647
AspS9I	GGNCC	1 cut(s)	684
AsuHPI	GGTGA	1 cut(s)	664
AsuII	TTCGAA	1 cut(s)	470
BbsI	GAAGAC	1 cut(s)	531
BbvI	GCAGC	4 cut(s)	413, 459, 614, 732
BccI	CCATC	3 cut(s)	224, 530, 721
BceAI	ACGGC	1 cut(s)	670
BcoDI	GTCTC	2 cut(s)	492, 566
BfaI	CTAG	1 cut(s)	315
BfmI	CTRYAG	1 cut(s)	171
BisI	GCNGC	4 cut(s)	402, 448, 628, 721
BlsI	GCNGC	4 cut(s)	403, 449, 629, 722
BmgT120I	GGNCC	1 cut(s)	684
BmiI	GGNNCC	3 cut(s)	183, 201, 650
BmsI	GCATC	4 cut(s)	7, 225, 268, 614
BpiI	GAAGAC	1 cut(s)	531
BpmI	CTGGAG	1 cut(s)	171
Bpu14I	TTCGAA	1 cut(s)	470
BsaJI	CCNNGG	2 cut(s)	258, 652
BsaWI	WCCGGW	1 cut(s)	196
Bsc4I	CCNNNNNNNGG	5 cut(s)	153, 209, 231, 681, 682
Bse1I	ACTGG	1 cut(s)	254
BseAI	TCCGGA	1 cut(s)	196
BseDI	CCNNGG	2 cut(s)	258, 652
BseGI	GGATG	3 cut(s)	240, 541, 565
BseLI	CCNNNNNNNGG	5 cut(s)	153, 209, 231, 681, 682
BseMII	CTCAG	2 cut(s)	474, 503
BseNI	ACTGG	1 cut(s)	254
BseRI	GAGGAG	1 cut(s)	191
BseXI	GCAGC	4 cut(s)	413, 459, 614, 732
BseYI	CCCAGC	1 cut(s)	676
BshFI	GGCC	2 cut(s)	299, 686
BsiSI	CCGG	1 cut(s)	197
BslI	CCNNNNNNNGG	5 cut(s)	153, 209, 231, 681, 682
BsmAI	GTCTC	2 cut(s)	492, 566
BsnI	GGCC	2 cut(s)	299, 686
Bsp119I	TTCGAA	1 cut(s)	470
Bsp13I	TCCGGA	1 cut(s)	196
Bsp143I	GATC	2 cut(s)	669, 731
BspANI	GGCC	2 cut(s)	299, 686
BspCNI	CTCAG	2 cut(s)	475, 502
BspEI	TCCGGA	1 cut(s)	196
BspLI	GGNNCC	3 cut(s)	183, 201, 650
BspMAI	CTGCAG	1 cut(s)	175
BspPI	GGATC	1 cut(s)	726
BspT104I	TTCGAA	1 cut(s)	470
BsrI	ACTGG	1 cut(s)	254
BssECI	CCNNGG	2 cut(s)	258, 652
BssMI	GATC	2 cut(s)	669, 731
BssT1I	CCWWGG	1 cut(s)	258
Bst4CI	ACNGT	2 cut(s)	77, 275
Bst6I	CTCTTC	1 cut(s)	467
BstBI	TTCGAA	1 cut(s)	470
BstC8I	GCNNGC	3 cut(s)	171, 204, 516
BstDEI	CTNAG	3 cut(s)	36, 483, 489
BstDSI	CCRYGG	1 cut(s)	652
BstF5I	GGATG	3 cut(s)	240, 541, 565
BstKTI	GATC	2 cut(s)	672, 734
BstMAI	GTCTC	2 cut(s)	492, 566
BstMBI	GATC	2 cut(s)	669, 731
BstMWI	GCNNNNNNNGC	2 cut(s)	199, 697
BstNSI	RCATGY	2 cut(s)	8, 90
BstSFI	CTRYAG	1 cut(s)	171
BstV1I	GCAGC	4 cut(s)	413, 459, 614, 732
BstV2I	GAAGAC	1 cut(s)	531
BstX2I	RGATCY	1 cut(s)	731
BstYI	RGATCY	1 cut(s)	731
BsuRI	GGCC	2 cut(s)	299, 686
BtgI	CCRYGG	1 cut(s)	652
BtgZI	GCGATG	1 cut(s)	645
BtsCI	GGATG	3 cut(s)	240, 541, 565
BtsI	GCAGTG	2 cut(s)	158, 300
BtsIMutI	CAGTG	4 cut(s)	73, 158, 280, 300
Cac8I	GCNNGC	3 cut(s)	171, 204, 516
Cfr13I	GGNCC	1 cut(s)	684
Csp6I	GTAC	1 cut(s)	703
CviAII	CATG	5 cut(s)	5, 87, 282, 443, 566
CviJI	RGCY	7 cut(s)	193, 202, 299, 370, 404, 587, 686
CviKI_1	RGCY	7 cut(s)	193, 202, 299, 370, 404, 587, 686
CviQI	GTAC	1 cut(s)	703
DdeI	CTNAG	3 cut(s)	36, 483, 489
DpnI	GATC	2 cut(s)	671, 733
DpnII	GATC	2 cut(s)	669, 731
DraI	TTTAAA	1 cut(s)	96
DraIII	CACNNNGTG	1 cut(s)	581
Eam1104I	CTCTTC	1 cut(s)	467
EarI	CTCTTC	1 cut(s)	467
Eco130I	CCWWGG	1 cut(s)	258
EcoT14I	CCWWGG	1 cut(s)	258
EcoT22I	ATGCAT	4 cut(s)	6, 59, 283, 607
ErhI	CCWWGG	1 cut(s)	258
FaeI	CATG	5 cut(s)	8, 90, 285, 446, 569
FatI	CATG	5 cut(s)	4, 86, 281, 442, 565
Fnu4HI	GCNGC	4 cut(s)	402, 448, 628, 721
FokI	GGATG	3 cut(s)	247, 548, 572
Fsp4HI	GCNGC	4 cut(s)	402, 448, 628, 721
FspBI	CTAG	1 cut(s)	315
GluI	GCNGC	4 cut(s)	402, 448, 628, 721
GsaI	CCCAGC	1 cut(s)	680
GsuI	CTGGAG	1 cut(s)	171
HaeIII	GGCC	2 cut(s)	299, 686
HapII	CCGG	1 cut(s)	197
Hin1II	CATG	5 cut(s)	8, 90, 285, 446, 569
HincII	GTYRAC	1 cut(s)	429
HindII	GTYRAC	1 cut(s)	429
HinfI	GANTC	2 cut(s)	121, 485
HpaII	CCGG	1 cut(s)	197
HphI	GGTGA	1 cut(s)	664
Hpy166II	GTNNAC	2 cut(s)	271, 429
Hpy188I	TCNGA	2 cut(s)	484, 610
Hpy188III	TCNNGA	4 cut(s)	188, 197, 385, 735
Hpy8I	GTNNAC	2 cut(s)	271, 429
HpyAV	CCTTC	1 cut(s)	109
HpyCH4III	ACNGT	2 cut(s)	77, 275
HpyF10VI	GCNNNNNNNGC	2 cut(s)	199, 697
HpyF3I	CTNAG	3 cut(s)	36, 483, 489
Hsp92II	CATG	5 cut(s)	8, 90, 285, 446, 569
Kpn2I	TCCGGA	1 cut(s)	196
Kzo9I	GATC	2 cut(s)	669, 731
LmnI	GCTCC	1 cut(s)	199
LpnPI	CCDG	9 cut(s)	183, 201, 210, 216, 235, 238, 381, 476, 690
Lsp1109I	GCAGC	4 cut(s)	413, 459, 614, 732
LweI	GCATC	4 cut(s)	7, 225, 268, 614
MaeI	CTAG	1 cut(s)	315
MaeIII	GTNAC	2 cut(s)	285, 391
MalI	GATC	2 cut(s)	671, 733
MboI	GATC	2 cut(s)	669, 731
MboII	GAAGA	5 cut(s)	484, 536, 557, 563, 679
MflI	RGATCY	1 cut(s)	731
MluCI	AATT	6 cut(s)	91, 163, 323, 433, 466, 614
MlyI	GAGTC	1 cut(s)	494
MmeI	TCCRAC	2 cut(s)	167, 398
MnlI	CCTC	7 cut(s)	169, 172, 195, 417, 470, 526, 550
Mph1103I	ATGCAT	4 cut(s)	6, 59, 283, 607
MroI	TCCGGA	1 cut(s)	196
MroXI	GAANNNNTTC	1 cut(s)	647
MseI	TTAA	6 cut(s)	12, 30, 60, 95, 354, 696
MslI	CAYNNNNRTG	1 cut(s)	276
MspI	CCGG	1 cut(s)	197
MwoI	GCNNNNNNNGC	2 cut(s)	199, 697
NdeII	GATC	2 cut(s)	669, 731
NlaIII	CATG	5 cut(s)	8, 90, 285, 446, 569
NlaIV	GGNNCC	3 cut(s)	183, 201, 650
NmeAIII	GCCGAG	1 cut(s)	712
NsiI	ATGCAT	4 cut(s)	6, 59, 283, 607
NspI	RCATGY	2 cut(s)	8, 90
NspV	TTCGAA	1 cut(s)	470
PdmI	GAANNNNTTC	1 cut(s)	647
PfeI	GAWTC	1 cut(s)	121
PflMI	CCANNNNNTGG	1 cut(s)	209
PkrI	GCNGC	4 cut(s)	403, 449, 629, 722
PleI	GAGTC	1 cut(s)	493
PpsI	GAGTC	1 cut(s)	493
PsiI	TTATAA	1 cut(s)	107
PspFI	CCCAGC	1 cut(s)	676
PspN4I	GGNNCC	3 cut(s)	183, 201, 650
PspPI	GGNCC	1 cut(s)	684
PstI	CTGCAG	1 cut(s)	175
PsuI	RGATCY	1 cut(s)	731
RsaI	GTAC	1 cut(s)	704
RsaNI	GTAC	1 cut(s)	703
RseI	CAYNNNNRTG	1 cut(s)	276
SaqAI	TTAA	6 cut(s)	12, 30, 60, 95, 354, 696
SatI	GCNGC	4 cut(s)	402, 448, 628, 721
Sau3AI	GATC	2 cut(s)	669, 731
Sau96I	GGNCC	1 cut(s)	684
SchI	GAGTC	1 cut(s)	494
SetI	ASST	9 cut(s)	183, 195, 320, 372, 428, 460, 481, 510, 742
SfaNI	GCATC	4 cut(s)	7, 225, 268, 614
SfcI	CTRYAG	1 cut(s)	171
SfuI	TTCGAA	1 cut(s)	470
SmiMI	CAYNNNNRTG	1 cut(s)	276
Sse9I	AATT	6 cut(s)	91, 163, 323, 433, 466, 614
SspMI	CTAG	1 cut(s)	315
StyI	CCWWGG	1 cut(s)	258
TaaI	ACNGT	2 cut(s)	77, 275
TaqI	TCGA	2 cut(s)	384, 470
TasI	AATT	6 cut(s)	91, 163, 323, 433, 466, 614
TatI	WGTACW	1 cut(s)	702
TfiI	GAWTC	1 cut(s)	121
Tru1I	TTAA	6 cut(s)	12, 30, 60, 95, 354, 696
Tru9I	TTAA	6 cut(s)	12, 30, 60, 95, 354, 696
TscAI	CASTG	4 cut(s)	80, 158, 280, 300
TseI	GCWGC	4 cut(s)	401, 447, 627, 720
TspDTI	ATGAA	2 cut(s)	564, 627
TspRI	CASTG	4 cut(s)	80, 158, 280, 300
Van91I	CCANNNNNTGG	1 cut(s)	209
XapI	RAATTY	4 cut(s)	163, 433, 466, 614
XceI	RCATGY	2 cut(s)	8, 90
XcmI	CCANNNNNNNNNTGG	1 cut(s)	150
XmnI	GAANNNNTTC	1 cut(s)	647
XspI	CTAG	1 cut(s)	315
Zsp2I	ATGCAT	4 cut(s)	6, 59, 283, 607

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