Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4B

Orthogroup ID

OG0002288

Physical Location & Seq

Genomic Coordinates Reverse (-)

29177679 .. 29179498

Gene Structure 1820 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4BG162000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 645 bp

ATGAAAGAGAAAAACTGCTCTGGTCGCGCATCTTGCATCGCGTTTTCGAATAAGTCAATCGATTGGCATTGGCGGGCAGAGATTGAATCTCATGTGCAACCTGGATCTGTATCAGTATATGTTCATTATGGACAAAGTGGACCAAAGGATGCAAATCTTTTAGCTCAAAGCCATGTTGTGATCACTACATATGGAGTGATCACAAATCCTATTTTCTTGGTTCTTGTTGAGGCGCATACCTTAAAATCCTCTAAAAGCCAACTCTCTATTGCTGCTGCTGCTTTAGTTGCTGGTCACCGATGGTGTCTTACTGGCACCCCTATACAGAACAATCTGGAGGACATTTATAGTCTACTCCGGTTTTTTAGGGTAGAACCTTGGGCGAATTGGGCTTGGTGGAATAAACTCATCCAGAAACCCTTTGAGGAGGGTGATGAGAGAGGGTTAAAGCTGGTTCAATCTATCTTGAAGACGATTATGTTAGGGAGAACCAAGTTTAGCACTGATCGTGAAGGCAGGCCTATTTTAGTCCTTCCTCCTGCTGATATTGAGGTGATTTATTGTGAACTCACAGAAGCTGAAAAAGACTTTTATGAGGCCCTGTTTAAAAGATCAAAGGTGAAATTTGATCAATTTGTCGAGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000724 GO:0000725 GO:0006139 GO:0006259 GO:0006281 GO:0006302 GO:0006310 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0008150 GO:0008152 GO:0009292 GO:0009294 GO:0009987 GO:0033554 GO:0034641 GO:0043170 GO:0044237 GO:0044238 GO:0044260 GO:0044764 GO:0045003 GO:0046483 GO:0050896 GO:0051704 GO:0051716 GO:0071704 GO:0090304 GO:1901360

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

HIRAN Helicase_C SNF2_N zf-C3HC4_2 zf-C3HC4_3

Protein Analysis

214

Amino Acids

24.36

Weight (kDa)

7.7

Isoelectric Point (pI)

41.28

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SNF2-rel_dom	PF00176	20 - 207	6.4e-39	SNF2-related domain

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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Publication-ready

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Orthologous Genes (Group: OG0002288)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G22750
fragaria_vesca	FvH4_6g52660 FvH4_6g52660 FvH4_6g52660 FvH4_6g52660 FvH4_6g52660 FvH4_6g52660 FvH4_6g52660 FvH4_6g52660 FvH4_6g52660 FvH4_6g52660
malus_domestica	MD17G1018000.v1.1
prunus_persica	Prupe.3G300100_v2.0.a1 Prupe.3G300100_v2.0.a1 Prupe.3G300100_v2.0.a1 Prupe.3G300100_v2.0.a1
pyrus_communis	pycom17g01450
rosa_chinensis	RchiOBHm_Chr2g0174191 RchiOBHm_Chr4g0410751
rosa_laevigata	RLG00000022255 RLG00000022256 RLG00000029588
rosa_multiflora	Rmu_sc0000954.1_g000002 Rmu_ssc0000198.1_g000002
rosa_roxburghii	Rroxscaffold_2G00078340 Rroxscaffold_2G00078370 Rroxscaffold_5G00355500
rosa_rugosa	Rorug02G0575800 Rorug02G0575900 Rorug02G0576000 Rorug04G0376700
rosa_samantha	Rh2AG655200 Rh2BG666400 Rh2CG630600 Rh2DG681000 Rh4AG162800 Rh4BG161900 Rh4BG162000 Rh4DG158500 Rh7CG048600
rosa_wichuraiana	Rw2G053780 Rw4G013570

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	314
AccI	GTMKAC	1 cut(s)	352
AccII	CGCG	2 cut(s)	27, 41
AciI	CCGC	1 cut(s)	73
AclWI	GGATC	1 cut(s)	112
AcsI	RAATTY	1 cut(s)	623
AgsI	TTSAA	3 cut(s)	86, 458, 469
AjnI	CCWGG	1 cut(s)	100
AluBI	AGCT	3 cut(s)	164, 451, 578
AluI	AGCT	3 cut(s)	164, 451, 578
AlwI	GGATC	1 cut(s)	112
AlwNI	CAGNNNCTG	1 cut(s)	578
AoxI	GGCC	2 cut(s)	518, 597
ApeKI	GCWGC	3 cut(s)	272, 275, 278
ApoI	RAATTY	1 cut(s)	623
AspLEI	GCGC	2 cut(s)	29, 235
AspS9I	GGNCC	2 cut(s)	140, 598
AsuHPI	GGTGA	4 cut(s)	287, 443, 565, 631
AsuII	TTCGAA	1 cut(s)	47
AvaII	GGWCC	1 cut(s)	140
BanI	GGYRCC	1 cut(s)	314
BbsI	GAAGAC	1 cut(s)	476
BbvI	GCAGC	3 cut(s)	259, 262, 265
BccI	CCATC	1 cut(s)	294
BciT130I	CCWGG	1 cut(s)	102
BclI	TGATCA	3 cut(s)	180, 198, 628
BisI	GCNGC	3 cut(s)	273, 276, 279
BlsI	GCNGC	3 cut(s)	274, 277, 280
Bme1390I	CCNGG	1 cut(s)	102
Bme18I	GGWCC	1 cut(s)	140
BmgT120I	GGNCC	2 cut(s)	140, 598
BmiI	GGNNCC	1 cut(s)	316
BmrFI	CCNGG	1 cut(s)	102
BmsI	GCATC	3 cut(s)	38, 45, 139
BpiI	GAAGAC	1 cut(s)	476
BpmI	CTGGAG	1 cut(s)	356
Bpu14I	TTCGAA	1 cut(s)	47
Bsa29I	ATCGAT	1 cut(s)	60
BsaBI	GATNNNNATC	2 cut(s)	109, 153
BsaJI	CCNNGG	1 cut(s)	377
BsaWI	WCCGGW	1 cut(s)	357
Bse1I	ACTGG	1 cut(s)	316
Bse8I	GATNNNNATC	2 cut(s)	109, 153
BseBI	CCWGG	1 cut(s)	102
BseCI	ATCGAT	1 cut(s)	60
BseDI	CCNNGG	1 cut(s)	377
BseGI	GGATG	2 cut(s)	154, 408
BseJI	GATNNNNATC	2 cut(s)	109, 153
BseNI	ACTGG	1 cut(s)	316
BseRI	GAGGAG	1 cut(s)	440
BseXI	GCAGC	3 cut(s)	259, 262, 265
Bsh1236I	CGCG	2 cut(s)	27, 41
BshFI	GGCC	2 cut(s)	520, 599
BshNI	GGYRCC	1 cut(s)	314
BshVI	ATCGAT	1 cut(s)	60
BsiSI	CCGG	1 cut(s)	358
BsnI	GGCC	2 cut(s)	520, 599
Bsp119I	TTCGAA	1 cut(s)	47
Bsp143I	GATC	6 cut(s)	104, 180, 198, 505, 611, 628
BspACI	CCGC	1 cut(s)	73
BspANI	GGCC	2 cut(s)	520, 599
BspDI	ATCGAT	1 cut(s)	60
BspFNI	CGCG	2 cut(s)	27, 41
BspLI	GGNNCC	1 cut(s)	316
BspPI	GGATC	1 cut(s)	112
BspT104I	TTCGAA	1 cut(s)	47
BspT107I	GGYRCC	1 cut(s)	314
BsrI	ACTGG	1 cut(s)	316
BssECI	CCNNGG	1 cut(s)	377
BssMI	GATC	6 cut(s)	104, 180, 198, 505, 611, 628
BssT1I	CCWWGG	1 cut(s)	377
Bst2UI	CCWGG	1 cut(s)	102
BstBI	TTCGAA	1 cut(s)	47
BstC8I	GCNNGC	2 cut(s)	75, 518
BstEII	GGTNACC	1 cut(s)	293
BstF5I	GGATG	2 cut(s)	154, 408
BstFNI	CGCG	2 cut(s)	27, 41
BstHHI	GCGC	2 cut(s)	29, 235
BstKTI	GATC	6 cut(s)	107, 183, 201, 508, 614, 631
BstMBI	GATC	6 cut(s)	104, 180, 198, 505, 611, 628
BstMWI	GCNNNNNNNGC	5 cut(s)	24, 33, 278, 287, 389
BstNI	CCWGG	1 cut(s)	102
BstPI	GGTNACC	1 cut(s)	293
BstSCI	CCNGG	1 cut(s)	100
BstUI	CGCG	2 cut(s)	27, 41
BstV1I	GCAGC	3 cut(s)	259, 262, 265
BstV2I	GAAGAC	1 cut(s)	476
BstX2I	RGATCY	1 cut(s)	104
BstYI	RGATCY	1 cut(s)	104
Bsu15I	ATCGAT	1 cut(s)	60
BsuRI	GGCC	2 cut(s)	520, 599
BsuTUI	ATCGAT	1 cut(s)	60
BtgZI	GCGATG	1 cut(s)	22
BtsCI	GGATG	2 cut(s)	154, 408
BtsIMutI	CAGTG	1 cut(s)	501
Cac8I	GCNNGC	2 cut(s)	75, 518
CaiI	CAGNNNCTG	1 cut(s)	578
CfoI	GCGC	2 cut(s)	29, 235
Cfr13I	GGNCC	2 cut(s)	140, 598
ClaI	ATCGAT	1 cut(s)	60
CviAII	CATG	2 cut(s)	92, 173
CviJI	RGCY	8 cut(s)	164, 171, 258, 392, 451, 520, 578, 599
CviKI_1	RGCY	8 cut(s)	164, 171, 258, 392, 451, 520, 578, 599
DpnI	GATC	6 cut(s)	106, 182, 200, 507, 613, 630
DpnII	GATC	6 cut(s)	104, 180, 198, 505, 611, 628
DraI	TTTAAA	1 cut(s)	607
Eco130I	CCWWGG	1 cut(s)	377
Eco147I	AGGCCT	1 cut(s)	520
Eco47I	GGWCC	1 cut(s)	140
Eco91I	GGTNACC	1 cut(s)	293
EcoO109I	RGGNCCY	1 cut(s)	598
EcoO65I	GGTNACC	1 cut(s)	293
EcoRII	CCWGG	1 cut(s)	100
EcoT14I	CCWWGG	1 cut(s)	377
ErhI	CCWWGG	1 cut(s)	377
FaeI	CATG	2 cut(s)	95, 176
FatI	CATG	2 cut(s)	91, 172
FauI	CCCGC	1 cut(s)	66
FauNDI	CATATG	1 cut(s)	190
FbaI	TGATCA	3 cut(s)	180, 198, 628
FblI	GTMKAC	1 cut(s)	352
Fnu4HI	GCNGC	3 cut(s)	273, 276, 279
FokI	GGATG	2 cut(s)	161, 395
Fsp4HI	GCNGC	3 cut(s)	273, 276, 279
GlaI	GCGC	2 cut(s)	28, 234
GluI	GCNGC	3 cut(s)	273, 276, 279
GsuI	CTGGAG	1 cut(s)	356
HaeIII	GGCC	2 cut(s)	520, 599
HapII	CCGG	1 cut(s)	358
HhaI	GCGC	2 cut(s)	29, 235
Hin1II	CATG	2 cut(s)	95, 176
Hin6I	GCGC	2 cut(s)	27, 233
HinP1I	GCGC	2 cut(s)	27, 233
HinfI	GANTC	1 cut(s)	86
HpaII	CCGG	1 cut(s)	358
HphI	GGTGA	4 cut(s)	287, 443, 565, 631
Hpy166II	GTNNAC	3 cut(s)	140, 353, 566
Hpy188III	TCNNGA	4 cut(s)	335, 412, 466, 509
Hpy8I	GTNNAC	3 cut(s)	140, 353, 566
HpyAV	CCTTC	2 cut(s)	506, 542
HpyCH4V	TGCA	3 cut(s)	36, 97, 152
HpyF10VI	GCNNNNNNNGC	5 cut(s)	24, 33, 278, 287, 389
Hsp92II	CATG	2 cut(s)	95, 176
HspAI	GCGC	2 cut(s)	27, 233
Ksp22I	TGATCA	3 cut(s)	180, 198, 628
Kzo9I	GATC	6 cut(s)	104, 180, 198, 505, 611, 628
Lsp1109I	GCAGC	3 cut(s)	259, 262, 265
LweI	GCATC	3 cut(s)	38, 45, 139
MaeIII	GTNAC	1 cut(s)	293
MalI	GATC	6 cut(s)	106, 182, 200, 507, 613, 630
MboI	GATC	6 cut(s)	104, 180, 198, 505, 611, 628
MboII	GAAGA	1 cut(s)	481
MflI	RGATCY	1 cut(s)	104
MluCI	AATT	3 cut(s)	385, 623, 632
MnlI	CCTC	9 cut(s)	223, 259, 331, 418, 421, 434, 544, 546, 589
MseI	TTAA	3 cut(s)	242, 446, 606
MspI	CCGG	1 cut(s)	358
MspR9I	CCNGG	1 cut(s)	102
MvaI	CCWGG	1 cut(s)	102
MvnI	CGCG	2 cut(s)	27, 41
MwoI	GCNNNNNNNGC	5 cut(s)	24, 33, 278, 287, 389
NdeI	CATATG	1 cut(s)	190
NdeII	GATC	6 cut(s)	104, 180, 198, 505, 611, 628
NlaIII	CATG	2 cut(s)	95, 176
NlaIV	GGNNCC	1 cut(s)	316
NmuCI	GTSAC	1 cut(s)	293
NspV	TTCGAA	1 cut(s)	47
PceI	AGGCCT	1 cut(s)	520
PfeI	GAWTC	1 cut(s)	86
PkrI	GCNGC	3 cut(s)	274, 277, 280
Psp6I	CCWGG	1 cut(s)	100
PspEI	GGTNACC	1 cut(s)	293
PspGI	CCWGG	1 cut(s)	100
PspN4I	GGNNCC	1 cut(s)	316
PspPI	GGNCC	2 cut(s)	140, 598
PstNI	CAGNNNCTG	1 cut(s)	578
PsuI	RGATCY	1 cut(s)	104
SaqAI	TTAA	3 cut(s)	242, 446, 606
SatI	GCNGC	3 cut(s)	273, 276, 279
Sau3AI	GATC	6 cut(s)	104, 180, 198, 505, 611, 628
Sau96I	GGNCC	2 cut(s)	140, 598
ScrFI	CCNGG	1 cut(s)	102
SetI	ASST	8 cut(s)	103, 166, 242, 379, 453, 555, 580, 621
SfaNI	GCATC	3 cut(s)	38, 45, 139
SfuI	TTCGAA	1 cut(s)	47
SinI	GGWCC	1 cut(s)	140
Sse9I	AATT	3 cut(s)	385, 623, 632
SseBI	AGGCCT	1 cut(s)	520
SsiI	CCGC	1 cut(s)	73
StuI	AGGCCT	1 cut(s)	520
StyD4I	CCNGG	1 cut(s)	100
StyI	CCWWGG	1 cut(s)	377
TaqI	TCGA	3 cut(s)	47, 60, 639
TasI	AATT	3 cut(s)	385, 623, 632
TfiI	GAWTC	1 cut(s)	86
Tru1I	TTAA	3 cut(s)	242, 446, 606
Tru9I	TTAA	3 cut(s)	242, 446, 606
TscAI	CASTG	1 cut(s)	508
TseFI	GTSAC	1 cut(s)	293
TseI	GCWGC	3 cut(s)	272, 275, 278
Tsp45I	GTSAC	1 cut(s)	293
TspDTI	ATGAA	2 cut(s)	17, 113
TspRI	CASTG	1 cut(s)	508
VpaK11BI	GGWCC	1 cut(s)	140
XapI	RAATTY	1 cut(s)	623
XmiI	GTMKAC	1 cut(s)	352

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