Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6D

Orthogroup ID

OG0003091

Physical Location & Seq

Genomic Coordinates Reverse (-)

66054617 .. 66057097

Gene Structure 2481 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6DG506600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 564 bp

ATGGAAGTCGGCGCTGCGTACAATCCCCGGACGGTGGAGGAGGTCTTCAGAGACTTCAAAGGCCGCAGAGCCGGCTTGCTTAAGGCCCTCACCACCGATGTCGGCTTGTTTTTTCAGCAGTGCGACCCTGAGAAGGAGAATCTTTGCCTCTATGGATTTCCAACCGAGCAGTGGGAAGTTAATTTGCCTGCAGAGGAGGTTCCTCCAGAGCTTCCGGAGCCAGCACTTGGTATCAACTTTGCCAGAGATGGGATGCAAGAAAAAGACTGGTTATCCTTGGTTGCTGTCCACAGTGATGCATGGTTACTTGCAGTGGCCTTTTACTTCGGTGCTAGGTTTCAATTTGATAAGACTGATAGGAAACGCCTTTTTAATATGATAAATGAGCTTCCAACTATATTCGAGATTGTCACAGGGACAGCCAAGAAACAAGTAAAGGAGAGGTCAACAAATTCAAATCATGGCAGCAACAAACCTAAATCAAATTCGAAGAGAGGTTCTGAGTCTCAGGGAAAGTATGCAAAGGTCAGGTTTTCATATCTTGGTCTCATCCCTGCAGTTTAG

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

187

Amino Acids

21.15

Weight (kDa)

7.73

Isoelectric Point (pI)

39.32

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Alfin	PF12165	11 - 138	1.5e-67	Alfin

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)

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Tree File

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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)
AccB7I	CCANNNNNTGG	1 cut(s)	227
AccIII	TCCGGA	1 cut(s)	214
AciI	CCGC	1 cut(s)	64
AcsI	RAATTY	2 cut(s)	451, 484
AcuI	CTGAAG	1 cut(s)	31
AfaI	GTAC	1 cut(s)	20
AfiI	CCNNNNNNNGG	5 cut(s)	34, 133, 171, 227, 249
AflII	CTTAAG	1 cut(s)	80
AgsI	TTSAA	3 cut(s)	58, 341, 456
AluBI	AGCT	2 cut(s)	211, 388
AluI	AGCT	2 cut(s)	211, 388
Alw26I	GTCTC	3 cut(s)	45, 510, 551
Aor13HI	TCCGGA	1 cut(s)	214
AoxI	GGCC	3 cut(s)	61, 84, 315
ApeKI	GCWGC	2 cut(s)	14, 465
ApoI	RAATTY	2 cut(s)	451, 484
AspLEI	GCGC	1 cut(s)	14
AspS9I	GGNCC	1 cut(s)	85
AsuC2I	CCSGG	1 cut(s)	28
AsuHPI	GGTGA	1 cut(s)	82
AsuII	TTCGAA	1 cut(s)	488
BbsI	GAAGAC	1 cut(s)	37
BbvI	GCAGC	1 cut(s)	477
BccI	CCATC	1 cut(s)	242
BcnI	CCSGG	1 cut(s)	28
BcoDI	GTCTC	3 cut(s)	45, 510, 551
BfaI	CTAG	1 cut(s)	333
BfmI	CTRYAG	2 cut(s)	189, 555
BfoI	RGCGCY	1 cut(s)	15
BfrI	CTTAAG	1 cut(s)	80
BisI	GCNGC	3 cut(s)	15, 64, 466
BlsI	GCNGC	3 cut(s)	16, 65, 467
Bme1390I	CCNGG	1 cut(s)	28
BmgT120I	GGNCC	1 cut(s)	85
BmiI	GGNNCC	2 cut(s)	201, 219
BmrFI	CCNGG	1 cut(s)	28
BmsI	GCATC	2 cut(s)	243, 286
BpiI	GAAGAC	1 cut(s)	37
BpmI	CTGGAG	1 cut(s)	189
Bpu14I	TTCGAA	1 cut(s)	488
BpuMI	CCSGG	1 cut(s)	28
BsaI	GGTCTC	1 cut(s)	551
BsaJI	CCNNGG	2 cut(s)	26, 276
BsaWI	WCCGGW	1 cut(s)	214
Bsc4I	CCNNNNNNNGG	5 cut(s)	34, 133, 171, 227, 249
Bse118I	RCCGGY	1 cut(s)	71
Bse1I	ACTGG	1 cut(s)	272
BseAI	TCCGGA	1 cut(s)	214
BseDI	CCNNGG	2 cut(s)	26, 276
BseGI	GGATG	2 cut(s)	258, 549
BseLI	CCNNNNNNNGG	5 cut(s)	34, 133, 171, 227, 249
BseMII	CTCAG	3 cut(s)	120, 492, 521
BseNI	ACTGG	1 cut(s)	272
BseRI	GAGGAG	2 cut(s)	53, 209
BseXI	GCAGC	1 cut(s)	477
BshFI	GGCC	3 cut(s)	63, 86, 317
BsiSI	CCGG	3 cut(s)	28, 72, 215
BslFI	GGGAC	1 cut(s)	430
BslI	CCNNNNNNNGG	5 cut(s)	34, 133, 171, 227, 249
BsmAI	GTCTC	3 cut(s)	45, 510, 551
BsmFI	GGGAC	1 cut(s)	430
BsnI	GGCC	3 cut(s)	63, 86, 317
Bso31I	GGTCTC	1 cut(s)	551
Bsp119I	TTCGAA	1 cut(s)	488
Bsp13I	TCCGGA	1 cut(s)	214
BspACI	CCGC	1 cut(s)	64
BspANI	GGCC	3 cut(s)	63, 86, 317
BspCNI	CTCAG	3 cut(s)	121, 493, 520
BspEI	TCCGGA	1 cut(s)	214
BspLI	GGNNCC	2 cut(s)	201, 219
BspMAI	CTGCAG	2 cut(s)	193, 559
BspT104I	TTCGAA	1 cut(s)	488
BspTI	CTTAAG	1 cut(s)	80
BspTNI	GGTCTC	1 cut(s)	551
BsrFI	RCCGGY	1 cut(s)	71
BsrI	ACTGG	1 cut(s)	272
BssAI	RCCGGY	1 cut(s)	71
BssECI	CCNNGG	2 cut(s)	26, 276
BssT1I	CCWWGG	1 cut(s)	276
Bst4CI	ACNGT	2 cut(s)	34, 293
Bst6I	CTCTTC	1 cut(s)	485
BstAFI	CTTAAG	1 cut(s)	80
BstBI	TTCGAA	1 cut(s)	488
BstC8I	GCNNGC	4 cut(s)	73, 77, 189, 222
BstDEI	CTNAG	3 cut(s)	129, 501, 507
BstF5I	GGATG	2 cut(s)	258, 549
BstH2I	RGCGCY	1 cut(s)	15
BstHHI	GCGC	1 cut(s)	14
BstMAI	GTCTC	3 cut(s)	45, 510, 551
BstMWI	GCNNNNNNNGC	2 cut(s)	72, 217
BstSCI	CCNGG	1 cut(s)	26
BstSFI	CTRYAG	2 cut(s)	189, 555
BstV1I	GCAGC	1 cut(s)	477
BstV2I	GAAGAC	1 cut(s)	37
BsuRI	GGCC	3 cut(s)	63, 86, 317
BtsCI	GGATG	2 cut(s)	258, 549
BtsI	GCAGTG	3 cut(s)	125, 176, 318
BtsIMutI	CAGTG	4 cut(s)	125, 176, 298, 318
Cac8I	GCNNGC	4 cut(s)	73, 77, 189, 222
CfoI	GCGC	1 cut(s)	14
Cfr10I	RCCGGY	1 cut(s)	71
Cfr13I	GGNCC	1 cut(s)	85
Csp6I	GTAC	1 cut(s)	19
CviAII	CATG	2 cut(s)	300, 461
CviQI	GTAC	1 cut(s)	19
DdeI	CTNAG	3 cut(s)	129, 501, 507
Eam1104I	CTCTTC	1 cut(s)	485
EarI	CTCTTC	1 cut(s)	485
Eco130I	CCWWGG	1 cut(s)	276
Eco31I	GGTCTC	1 cut(s)	551
Eco57I	CTGAAG	1 cut(s)	31
EcoO109I	RGGNCCY	1 cut(s)	85
EcoT14I	CCWWGG	1 cut(s)	276
EcoT22I	ATGCAT	1 cut(s)	301
ErhI	CCWWGG	1 cut(s)	276
FaeI	CATG	2 cut(s)	303, 464
FaiI	YATR	7 cut(s)	153, 301, 377, 398, 462, 519, 538
FaqI	GGGAC	1 cut(s)	430
FatI	CATG	2 cut(s)	299, 460
Fnu4HI	GCNGC	3 cut(s)	15, 64, 466
FokI	GGATG	2 cut(s)	265, 536
Fsp4HI	GCNGC	3 cut(s)	15, 64, 466
FspBI	CTAG	1 cut(s)	333
GlaI	GCGC	1 cut(s)	13
GluI	GCNGC	3 cut(s)	15, 64, 466
GsuI	CTGGAG	1 cut(s)	189
HaeII	RGCGCY	1 cut(s)	15
HaeIII	GGCC	3 cut(s)	63, 86, 317
HapII	CCGG	3 cut(s)	28, 72, 215
HhaI	GCGC	1 cut(s)	14
Hin1II	CATG	2 cut(s)	303, 464
Hin6I	GCGC	1 cut(s)	12
HinP1I	GCGC	1 cut(s)	12
HincII	GTYRAC	1 cut(s)	447
HindII	GTYRAC	1 cut(s)	447
HinfI	GANTC	2 cut(s)	139, 503
HpaII	CCGG	3 cut(s)	28, 72, 215
HphI	GGTGA	1 cut(s)	82
Hpy166II	GTNNAC	2 cut(s)	289, 447
Hpy188I	TCNGA	2 cut(s)	50, 502
Hpy188III	TCNNGA	3 cut(s)	206, 215, 403
Hpy8I	GTNNAC	2 cut(s)	289, 447
HpyAV	CCTTC	1 cut(s)	127
HpyCH4III	ACNGT	2 cut(s)	34, 293
HpyCH4V	TGCA	6 cut(s)	191, 256, 299, 311, 521, 557
HpyF10VI	GCNNNNNNNGC	2 cut(s)	72, 217
HpyF3I	CTNAG	3 cut(s)	129, 501, 507
Hsp92II	CATG	2 cut(s)	303, 464
HspAI	GCGC	1 cut(s)	12
Kpn2I	TCCGGA	1 cut(s)	214
KroI	GCCGGC	1 cut(s)	71
KroNI	GCCGGC	1 cut(s)	73
LmnI	GCTCC	1 cut(s)	217
Lsp1109I	GCAGC	1 cut(s)	477
LweI	GCATC	2 cut(s)	243, 286
MaeI	CTAG	1 cut(s)	333
MaeIII	GTNAC	2 cut(s)	303, 409
MboII	GAAGA	2 cut(s)	37, 502
MluCI	AATT	4 cut(s)	181, 341, 451, 484
MlyI	GAGTC	1 cut(s)	512
MmeI	TCCRAC	2 cut(s)	185, 416
MnlI	CCTC	9 cut(s)	31, 34, 98, 158, 187, 190, 213, 435, 488
Mph1103I	ATGCAT	1 cut(s)	301
MroI	TCCGGA	1 cut(s)	214
MroNI	GCCGGC	1 cut(s)	71
MseI	TTAA	3 cut(s)	81, 180, 372
MslI	CAYNNNNRTG	1 cut(s)	294
MspCI	CTTAAG	1 cut(s)	80
MspI	CCGG	3 cut(s)	28, 72, 215
MspR9I	CCNGG	1 cut(s)	28
MwoI	GCNNNNNNNGC	2 cut(s)	72, 217
NaeI	GCCGGC	1 cut(s)	73
NciI	CCSGG	1 cut(s)	28
NgoMIV	GCCGGC	1 cut(s)	71
NlaIII	CATG	2 cut(s)	303, 464
NlaIV	GGNNCC	2 cut(s)	201, 219
NmuCI	GTSAC	1 cut(s)	409
NsiI	ATGCAT	1 cut(s)	301
NspV	TTCGAA	1 cut(s)	488
PdiI	GCCGGC	1 cut(s)	73
PfeI	GAWTC	1 cut(s)	139
PflMI	CCANNNNNTGG	1 cut(s)	227
PkrI	GCNGC	3 cut(s)	16, 65, 467
PleI	GAGTC	1 cut(s)	511
PpsI	GAGTC	1 cut(s)	511
PspN4I	GGNNCC	2 cut(s)	201, 219
PspPI	GGNCC	1 cut(s)	85
PstI	CTGCAG	2 cut(s)	193, 559
RsaI	GTAC	1 cut(s)	20
RsaNI	GTAC	1 cut(s)	19
RseI	CAYNNNNRTG	1 cut(s)	294
SaqAI	TTAA	3 cut(s)	81, 180, 372
SatI	GCNGC	3 cut(s)	15, 64, 466
Sau96I	GGNCC	1 cut(s)	85
SchI	GAGTC	1 cut(s)	512
ScrFI	CCNGG	1 cut(s)	28
SfaNI	GCATC	2 cut(s)	243, 286
SfcI	CTRYAG	2 cut(s)	189, 555
SfuI	TTCGAA	1 cut(s)	488
SmiMI	CAYNNNNRTG	1 cut(s)	294
SmlI	CTYRAG	1 cut(s)	80
SmoI	CTYRAG	1 cut(s)	80
Sse9I	AATT	4 cut(s)	181, 341, 451, 484
SsiI	CCGC	1 cut(s)	64
SspMI	CTAG	1 cut(s)	333
StyD4I	CCNGG	1 cut(s)	26
StyI	CCWWGG	1 cut(s)	276
TaaI	ACNGT	2 cut(s)	34, 293
TaqI	TCGA	2 cut(s)	402, 488
TasI	AATT	4 cut(s)	181, 341, 451, 484
TauI	GCSGC	1 cut(s)	66
TfiI	GAWTC	1 cut(s)	139
Tru1I	TTAA	3 cut(s)	81, 180, 372
Tru9I	TTAA	3 cut(s)	81, 180, 372
TscAI	CASTG	4 cut(s)	125, 176, 298, 318
TseFI	GTSAC	1 cut(s)	409
TseI	GCWGC	2 cut(s)	14, 465
Tsp45I	GTSAC	1 cut(s)	409
TspDTI	ATGAA	1 cut(s)	525
TspRI	CASTG	4 cut(s)	125, 176, 298, 318
Van91I	CCANNNNNTGG	1 cut(s)	227
Vha464I	CTTAAG	1 cut(s)	80
XapI	RAATTY	2 cut(s)	451, 484
XcmI	CCANNNNNNNNNTGG	1 cut(s)	168
XspI	CTAG	1 cut(s)	333
Zsp2I	ATGCAT	1 cut(s)	301

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