Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4A

Orthogroup ID

OG0000759

Physical Location & Seq

Genomic Coordinates Reverse (-)

8111435 .. 8120935

Gene Structure 9501 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4AG038300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 900 bp

ATGAACCCGAAGCGTAAGAGCTTACAAAACAGCGAGGGTTCGATCAAAAGGGCCAAACCCATTTCGACCCATCATATCAAGCAGCAAGTTCCCGACGCCCAACAGGGTTTGATCCAACTGCAAGAGAATGTGATGAAAATCCGATCAGTAATCGGGTCCGAAATACTCGAAAATCAGGCGAATAGAATCACAGGGGCTCGGATTTCCAGGTCTGAGGAGTCAGCTGCTAAGAGGGTGAAGAAGGAAGTTGCTGACTGTGAATTGATTTCGGTCCGACATGAAAGACCTCAGAATTTGGAGGATGGCGATTTCAAGATTGAGCCGGATTGGTTCTTGGTGGGAAGCACATTCGTCACTGCGGTTTCGACTAGTAAAGGCATGAAATTATTGAACAATGAGATTGTTCATCTCTCTTTTCCTTCCTCAAATTCCAGCTACAAAACCCAATGGATTTTTCGTTTCTCGACGAAAAGATCAGGAGAGGAGGGCTTCTTCAATCTATGTAAACATTTTCACAGGGGAGGCAACCACAAAATTTCAACTGCAACGCTGATGGCAAGAGGAGGAATCCTAGCAGATGCAATGGGACTTCGGAAGACTGTGATGACAATTGCTCTAATACTTGCAAGACCAGGTAAAAGAGGCTCTAGTGATATCGAAATTACAAAGAAGAGGAAGATAGATTCAAATACAACTGCCCCATTGAAACCAAAGGGAGGCACTCTTGTTGTTTGTCCCCTGTCCTTGTTAAGCCAGTGGAAGGATGAGCTTGAAACTCATTCAGAGCCCAAAAGTAGTTCCATTTTTGTTCACTATGGTGGACACAGAACTGCTAACCCCAAGGCAATCTCGGTACATGATGTGGTCAAAACAACATATGGTGTCTTGGCTGCAGCTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0009507 GO:0009526 GO:0009536 GO:0009941 GO:0031967 GO:0031975 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

HIRAN Helicase_C SNF2_N zf-C3HC4 zf-C3HC4_3

Protein Analysis

299

Amino Acids

33.06

Weight (kDa)

9.9

Isoelectric Point (pI)

46.49

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SNF2-rel_dom	PF00176	185 - 296	3.5e-17	SNF2-related domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0000759)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G43530
fragaria_vesca	FvH4_4g03130 FvH4_4g03131 FvH4_4g03132 FvH4_4g03180 FvH4_4g03180 FvH4_4g03180
malus_domestica	MD16G1213200.v1.1
prunus_persica	Prupe.1G034800_v2.0.a1
pyrus_communis	pycom16g17900 pycom16g17910
rosa_chinensis	RchiOBHm_Chr4g0391421 RchiOBHm_Chr4g0391471 RchiOBHm_Chr4g0391481 RchiOBHm_Chr4g0391501 RchiOBHm_Chr4g0391631 RchiOBHm_Chr4g0391741 RchiOBHm_Chr4g0391801
rosa_laevigata	RLG00000009859 RLG00000009860 RLG00000009864 RLG00000009865 RLG00000009866 RLG00000028882 RLG00000034555
rosa_multiflora	Rmu_sc0000383.1_g000032 Rmu_sc0001174.1_g000001 Rmu_sc0001174.1_g000027 Rmu_sc0001174.1_g000030 Rmu_sc0004862.1_g000001 Rmu_sc0004862.1_g000022 Rmu_sc0007466.1_g000001 Rmu_sc0021280.1_g000001 Rmu_sc0023741.1_g000005
rosa_roxburghii	Rroxscaffold_5G00337130 Rroxscaffold_5G00337140 Rroxscaffold_5G00337170 Rroxscaffold_7G00197540
rosa_rugosa	Rorug03G0335900 Rorug03G0336000 Rorug03G0336100 Rorug03G0336400
rosa_samantha	Rh4AG037500 Rh4AG037600 Rh4AG037700 Rh4AG038300 Rh4AG038400 Rh4AG038500 Rh4AG038800 Rh4BG031800 Rh4BG032300 Rh4BG032500 Rh4BG032600 Rh4BG033000 Rh4BG137700 Rh4CG040500 Rh4CG040700 Rh4CG040800 Rh4CG041400 Rh4CG269500 Rh4DG035000 Rh4DG035100 Rh4DG035200 Rh4DG036200 Rh6DG188300
rosa_wichuraiana	Rw4G002920 Rw4G002930 Rw4G002970 Rw4G003010 Rw5G048340

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	359
AclWI	GGATC	1 cut(s)	106
AcsI	RAATTY	3 cut(s)	292, 427, 534
AcyI	GRCGYC	1 cut(s)	96
AfaI	GTAC	1 cut(s)	855
AfiI	CCNNNNNNNGG	2 cut(s)	716, 760
AgsI	TTSAA	7 cut(s)	313, 391, 496, 540, 687, 706, 773
AhlI	ACTAGT	1 cut(s)	368
AjnI	CCWGG	2 cut(s)	206, 631
AjuI	GAANNNNNNNTTGG	2 cut(s)	438, 470
AleI	CACNNNNGTG	1 cut(s)	816
AluBI	AGCT	5 cut(s)	21, 224, 435, 769, 896
AluI	AGCT	5 cut(s)	21, 224, 435, 769, 896
AlwI	GGATC	1 cut(s)	106
AoxI	GGCC	1 cut(s)	51
ApeKI	GCWGC	4 cut(s)	82, 224, 890, 893
ApoI	RAATTY	3 cut(s)	292, 427, 534
AspS9I	GGNCC	3 cut(s)	51, 156, 271
AsuHPI	GGTGA	1 cut(s)	247
AvaII	GGWCC	2 cut(s)	156, 271
BanII	GRGCYC	2 cut(s)	199, 789
BbsI	GAAGAC	1 cut(s)	602
BbvI	GCAGC	3 cut(s)	94, 211, 877
BccI	CCATC	3 cut(s)	78, 296, 547
BciT130I	CCWGG	2 cut(s)	208, 633
BcuI	ACTAGT	1 cut(s)	368
BfaI	CTAG	3 cut(s)	369, 572, 648
BfmI	CTRYAG	1 cut(s)	891
BisI	GCNGC	4 cut(s)	83, 225, 891, 894
BlsI	GCNGC	4 cut(s)	84, 226, 892, 895
Bme1390I	CCNGG	2 cut(s)	208, 633
Bme18I	GGWCC	2 cut(s)	156, 271
BmgT120I	GGNCC	3 cut(s)	51, 156, 271
BmiI	GGNNCC	1 cut(s)	157
BmrFI	CCNGG	2 cut(s)	208, 633
BmsI	GCATC	1 cut(s)	568
BpiI	GAAGAC	1 cut(s)	602
BsaBI	GATNNNNATC	1 cut(s)	137
BsaHI	GRCGYC	1 cut(s)	96
BsaJI	CCNNGG	1 cut(s)	840
Bsc4I	CCNNNNNNNGG	2 cut(s)	716, 760
Bse1I	ACTGG	1 cut(s)	754
Bse3DI	GCAATG	1 cut(s)	588
Bse8I	GATNNNNATC	1 cut(s)	137
BseBI	CCWGG	2 cut(s)	208, 633
BseDI	CCNNGG	1 cut(s)	840
BseGI	GGATG	2 cut(s)	307, 769
BseJI	GATNNNNATC	1 cut(s)	137
BseLI	CCNNNNNNNGG	2 cut(s)	716, 760
BseMI	GCAATG	1 cut(s)	588
BseMII	CTCAG	2 cut(s)	204, 302
BseNI	ACTGG	1 cut(s)	754
BseRI	GAGGAG	3 cut(s)	230, 497, 576
BseXI	GCAGC	3 cut(s)	94, 211, 877
BshFI	GGCC	1 cut(s)	53
BsiSI	CCGG	1 cut(s)	323
BslFI	GGGAC	2 cut(s)	600, 720
BslI	CCNNNNNNNGG	2 cut(s)	716, 760
BsmFI	GGGAC	2 cut(s)	600, 720
BsnI	GGCC	1 cut(s)	53
Bsp1286I	GDGCHC	2 cut(s)	199, 789
Bsp143I	GATC	4 cut(s)	42, 111, 143, 473
BspACI	CCGC	1 cut(s)	359
BspANI	GGCC	1 cut(s)	53
BspCNI	CTCAG	2 cut(s)	205, 301
BspLI	GGNNCC	1 cut(s)	157
BspMAI	CTGCAG	1 cut(s)	895
BspPI	GGATC	1 cut(s)	106
BsrDI	GCAATG	1 cut(s)	588
BsrI	ACTGG	1 cut(s)	754
BssECI	CCNNGG	1 cut(s)	840
BssMI	GATC	4 cut(s)	42, 111, 143, 473
BssNI	GRCGYC	1 cut(s)	96
BssT1I	CCWWGG	1 cut(s)	840
Bst2UI	CCWGG	2 cut(s)	208, 633
Bst4CI	ACNGT	2 cut(s)	257, 601
Bst6I	CTCTTC	1 cut(s)	665
BstACI	GRCGYC	1 cut(s)	96
BstDEI	CTNAG	3 cut(s)	213, 228, 288
BstF5I	GGATG	2 cut(s)	307, 769
BstKTI	GATC	4 cut(s)	45, 114, 146, 476
BstMBI	GATC	4 cut(s)	42, 111, 143, 473
BstNI	CCWGG	2 cut(s)	208, 633
BstSCI	CCNGG	2 cut(s)	206, 631
BstSFI	CTRYAG	1 cut(s)	891
BstV1I	GCAGC	3 cut(s)	94, 211, 877
BstV2I	GAAGAC	1 cut(s)	602
BsuRI	GGCC	1 cut(s)	53
BtsCI	GGATG	2 cut(s)	307, 769
BtsI	GCAGTG	1 cut(s)	354
BtsIMutI	CAGTG	2 cut(s)	354, 761
Cfr13I	GGNCC	3 cut(s)	51, 156, 271
CpoI	CGGWCCG	1 cut(s)	271
CseI	GACGC	1 cut(s)	104
CsiI	ACCWGGT	1 cut(s)	631
Csp6I	GTAC	1 cut(s)	854
CspI	CGGWCCG	1 cut(s)	271
CviAII	CATG	3 cut(s)	278, 379, 857
CviQI	GTAC	1 cut(s)	854
DdeI	CTNAG	3 cut(s)	213, 228, 288
DpnI	GATC	4 cut(s)	44, 113, 145, 475
DpnII	GATC	4 cut(s)	42, 111, 143, 473
Eam1104I	CTCTTC	1 cut(s)	665
EarI	CTCTTC	1 cut(s)	665
Eco130I	CCWWGG	1 cut(s)	840
Eco24I	GRGCYC	2 cut(s)	199, 789
Eco32I	GATATC	1 cut(s)	655
Eco47I	GGWCC	2 cut(s)	156, 271
EcoRII	CCWGG	2 cut(s)	206, 631
EcoRV	GATATC	1 cut(s)	655
EcoT14I	CCWWGG	1 cut(s)	840
EcoT38I	GRGCYC	2 cut(s)	199, 789
ErhI	CCWWGG	1 cut(s)	840
FaeI	CATG	3 cut(s)	281, 382, 860
FaiI	YATR	8 cut(s)	75, 279, 380, 502, 816, 858, 877, 879
FaqI	GGGAC	2 cut(s)	600, 720
FatI	CATG	3 cut(s)	277, 378, 856
FauNDI	CATATG	1 cut(s)	877
Fnu4HI	GCNGC	4 cut(s)	83, 225, 891, 894
FokI	GGATG	2 cut(s)	314, 776
FriOI	GRGCYC	2 cut(s)	199, 789
Fsp4HI	GCNGC	4 cut(s)	83, 225, 891, 894
FspBI	CTAG	3 cut(s)	369, 572, 648
GluI	GCNGC	4 cut(s)	83, 225, 891, 894
HaeIII	GGCC	1 cut(s)	53
HapII	CCGG	1 cut(s)	323
HgaI	GACGC	1 cut(s)	104
Hin1I	GRCGYC	1 cut(s)	96
Hin1II	CATG	3 cut(s)	281, 382, 860
HinfI	GANTC	4 cut(s)	186, 218, 567, 683
HpaII	CCGG	1 cut(s)	323
HphI	GGTGA	1 cut(s)	247
Hpy166II	GTNNAC	3 cut(s)	506, 811, 821
Hpy188I	TCNGA	8 cut(s)	143, 160, 201, 214, 275, 291, 594, 784
Hpy188III	TCNNGA	4 cut(s)	92, 313, 463, 477
Hpy8I	GTNNAC	3 cut(s)	506, 811, 821
Hpy99I	CGWCG	2 cut(s)	98, 469
HpyAV	CCTTC	3 cut(s)	235, 429, 754
HpyCH4III	ACNGT	2 cut(s)	257, 601
HpyCH4V	TGCA	5 cut(s)	121, 545, 581, 626, 893
HpyF3I	CTNAG	3 cut(s)	213, 228, 288
Hsp92I	GRCGYC	1 cut(s)	96
Hsp92II	CATG	3 cut(s)	281, 382, 860
Kzo9I	GATC	4 cut(s)	42, 111, 143, 473
Lsp1109I	GCAGC	3 cut(s)	94, 211, 877
LweI	GCATC	1 cut(s)	568
MabI	ACCWGGT	1 cut(s)	631
MaeI	CTAG	3 cut(s)	369, 572, 648
MaeIII	GTNAC	1 cut(s)	352
MalI	GATC	4 cut(s)	44, 113, 145, 475
MboI	GATC	4 cut(s)	42, 111, 143, 473
MboII	GAAGA	5 cut(s)	250, 484, 607, 682, 688
MfeI	CAATTG	1 cut(s)	609
MhlI	GDGCHC	2 cut(s)	199, 789
MluCI	AATT	7 cut(s)	260, 292, 383, 427, 534, 609, 660
MlyI	GAGTC	1 cut(s)	227
MmeI	TCCRAC	2 cut(s)	139, 298
MseI	TTAA	2 cut(s)	749, 898
MslI	CAYNNNNRTG	1 cut(s)	816
MspA1I	CMGCKG	1 cut(s)	224
MspI	CCGG	1 cut(s)	323
MspR9I	CCNGG	2 cut(s)	208, 633
MunI	CAATTG	1 cut(s)	609
MvaI	CCWGG	2 cut(s)	208, 633
NdeI	CATATG	1 cut(s)	877
NdeII	GATC	4 cut(s)	42, 111, 143, 473
NlaIII	CATG	3 cut(s)	281, 382, 860
NlaIV	GGNNCC	1 cut(s)	157
NmuCI	GTSAC	1 cut(s)	352
OliI	CACNNNNGTG	1 cut(s)	816
PfeI	GAWTC	3 cut(s)	186, 567, 683
PkrI	GCNGC	4 cut(s)	84, 226, 892, 895
PleI	GAGTC	1 cut(s)	226
PpsI	GAGTC	1 cut(s)	226
Psp6I	CCWGG	2 cut(s)	206, 631
PspGI	CCWGG	2 cut(s)	206, 631
PspN4I	GGNNCC	1 cut(s)	157
PspPI	GGNCC	3 cut(s)	51, 156, 271
PstI	CTGCAG	1 cut(s)	895
PvuII	CAGCTG	1 cut(s)	224
RsaI	GTAC	1 cut(s)	855
RsaNI	GTAC	1 cut(s)	854
RseI	CAYNNNNRTG	1 cut(s)	816
Rsr2I	CGGWCCG	1 cut(s)	271
RsrII	CGGWCCG	1 cut(s)	271
SaqAI	TTAA	2 cut(s)	749, 898
SatI	GCNGC	4 cut(s)	83, 225, 891, 894
Sau3AI	GATC	4 cut(s)	42, 111, 143, 473
Sau96I	GGNCC	3 cut(s)	51, 156, 271
SchI	GAGTC	1 cut(s)	227
ScrFI	CCNGG	2 cut(s)	208, 633
SduI	GDGCHC	2 cut(s)	199, 789
SetI	ASST	8 cut(s)	23, 212, 226, 289, 437, 637, 771, 898
SexAI	ACCWGGT	1 cut(s)	631
SfaNI	GCATC	1 cut(s)	568
SfcI	CTRYAG	1 cut(s)	891
SinI	GGWCC	2 cut(s)	156, 271
SmiMI	CAYNNNNRTG	1 cut(s)	816
SpeI	ACTAGT	1 cut(s)	368
Sse9I	AATT	7 cut(s)	260, 292, 383, 427, 534, 609, 660
SsiI	CCGC	1 cut(s)	359
SspMI	CTAG	3 cut(s)	369, 572, 648
StyD4I	CCNGG	2 cut(s)	206, 631
StyI	CCWWGG	1 cut(s)	840
TaaI	ACNGT	2 cut(s)	257, 601
TaqI	TCGA	6 cut(s)	41, 65, 168, 365, 464, 657
TaqII	GACCGA	1 cut(s)	259
TasI	AATT	7 cut(s)	260, 292, 383, 427, 534, 609, 660
TfiI	GAWTC	3 cut(s)	186, 567, 683
Tru1I	TTAA	2 cut(s)	749, 898
Tru9I	TTAA	2 cut(s)	749, 898
TscAI	CASTG	2 cut(s)	361, 761
TseFI	GTSAC	1 cut(s)	352
TseI	GCWGC	4 cut(s)	82, 224, 890, 893
Tsp45I	GTSAC	1 cut(s)	352
TspDTI	ATGAA	5 cut(s)	17, 149, 294, 395, 395
TspRI	CASTG	2 cut(s)	361, 761
VpaK11BI	GGWCC	2 cut(s)	156, 271
XapI	RAATTY	3 cut(s)	292, 427, 534
XspI	CTAG	3 cut(s)	369, 572, 648

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