Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4C

Orthogroup ID

OG0000759

Physical Location & Seq

Genomic Coordinates Forward (+)

52379433 .. 52384469

Gene Structure 5037 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4CG269500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 849 bp

ATGCGCATGAAATTGTTGGACAATGAGATTGTTCGTCTCTCTTTTCCTTCCTCAAATTCCAGCTACAAAACCCAGTGGATTGTTTGTTTCTCAACGAAAAGATCAGGAGAGGAGGGCTTCTTCAATCTATGTAAACATTTTCACAGGGGAGGCAACCACAAAATTATTCCAACTGCAATGCTGATGGCAAGAGGAGGAGTGACAGATGCAATGGGACTTCGGAAGACTGTGATGACAATTGCTCTAATACTTGCAAGACCAGGTAAAAGAGGCTCTAGTGATATCGAAATTACAAAGAAGAGGAAGATAGATTCAGATACAACTGCCCCATTGAAACCAAAGGGAGGCACTCTTGTTGTTTGTCCCTTGTCTTTGTCAAGCCAGTGGAAGGATGAGCTTGAAACTCATTCAGAGCTCAAAAGTAGTTCCATTTTTGTTCACTATGGTGGACACAGAACTGCTAACCCCAAGGCAATCTCGCTTAAAAAAGTGATGGGGAGGACAGCCTTTTCCACCAGGTTGACTGGTATAGGGTGGTGCTTGATGAAGCTCATACCATTAAATCTTCAAGGACCCAAGGTGCTCGATCAGGCTGTTTTCACCTTGTCATCGCATTGCAGATGGTGTTTGACTGGAACTCCTATTCAGAATAATTTGGAAGATCTCTACAGCCTCCTATGTTTCTTCCCTGTTGAACCATGGTGCAACTGGGCATGGTATCTTGGGGTTGGAGTGATGGATATCCCATGCTACGGCATCTCTGCTTTAATTGTTAGAATGAAGCAGTTGTGGTTCTCAAGATCATTCCTGGAGTCTTTTCAGGGTGAGAGGTGTCGTTGCGTGCATTGA

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

282

Amino Acids

31.75

Weight (kDa)

9.6

Isoelectric Point (pI)

34.88

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SNF2-rel_dom	PF00176	68 - 153	3.3e-09	SNF2-related domain
SNF2-rel_dom	PF00176	196 - 240	1.2e-11	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: 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)
Acc16I	TGCGCA	1 cut(s)	5
AcsI	RAATTY	1 cut(s)	55
AfiI	CCNNNNNNNGG	3 cut(s)	344, 388, 752
AgsI	TTSAA	5 cut(s)	124, 334, 401, 569, 695
AjnI	CCWGG	3 cut(s)	259, 515, 807
AleI	CACNNNNGTG	1 cut(s)	444
AluBI	AGCT	4 cut(s)	63, 397, 415, 550
AluI	AGCT	4 cut(s)	63, 397, 415, 550
Alw21I	GWGCWC	2 cut(s)	417, 585
Alw26I	GTCTC	1 cut(s)	41
ApoI	RAATTY	1 cut(s)	55
AspLEI	GCGC	1 cut(s)	6
AspS9I	GGNCC	1 cut(s)	572
AsuHPI	GGTGA	2 cut(s)	592, 836
AvaII	GGWCC	1 cut(s)	572
BanII	GRGCYC	1 cut(s)	417
BbsI	GAAGAC	1 cut(s)	230
Bbv12I	GWGCWC	2 cut(s)	417, 585
BccI	CCATC	4 cut(s)	178, 487, 615, 730
BceAI	ACGGC	1 cut(s)	769
BciT130I	CCWGG	3 cut(s)	261, 517, 809
BcoDI	GTCTC	1 cut(s)	41
BfaI	CTAG	1 cut(s)	276
BfmI	CTRYAG	1 cut(s)	667
BglII	AGATCT	1 cut(s)	661
Bme1390I	CCNGG	3 cut(s)	261, 517, 809
Bme18I	GGWCC	1 cut(s)	572
BmgT120I	GGNCC	1 cut(s)	572
BmiI	GGNNCC	1 cut(s)	574
BmrFI	CCNGG	3 cut(s)	261, 517, 809
BmrI	ACTGGG	2 cut(s)	67, 718
BmsI	GCATC	2 cut(s)	196, 765
BmuI	ACTGGG	2 cut(s)	67, 718
BpiI	GAAGAC	1 cut(s)	230
BpmI	CTGGAG	1 cut(s)	830
BpuEI	CTTGAG	1 cut(s)	781
BsaBI	GATNNNNATC	1 cut(s)	740
BsaJI	CCNNGG	3 cut(s)	468, 576, 698
BsaXI	ACNNNNNCTCC	2 cut(s)	622, 652
Bsc4I	CCNNNNNNNGG	3 cut(s)	344, 388, 752
Bse1I	ACTGG	5 cut(s)	73, 382, 529, 637, 713
Bse3DI	GCAATG	3 cut(s)	183, 216, 613
Bse8I	GATNNNNATC	1 cut(s)	740
BseBI	CCWGG	3 cut(s)	261, 517, 809
BseDI	CCNNGG	3 cut(s)	468, 576, 698
BseGI	GGATG	1 cut(s)	397
BseJI	GATNNNNATC	1 cut(s)	740
BseLI	CCNNNNNNNGG	3 cut(s)	344, 388, 752
BseMI	GCAATG	3 cut(s)	183, 216, 613
BseNI	ACTGG	5 cut(s)	73, 382, 529, 637, 713
BseRI	GAGGAG	3 cut(s)	125, 207, 210
BsiHKAI	GWGCWC	2 cut(s)	417, 585
BslFI	GGGAC	2 cut(s)	228, 348
BslI	CCNNNNNNNGG	3 cut(s)	344, 388, 752
BsmAI	GTCTC	1 cut(s)	41
BsmBI	CGTCTC	1 cut(s)	41
BsmFI	GGGAC	2 cut(s)	228, 348
Bsp1286I	GDGCHC	2 cut(s)	417, 585
Bsp143I	GATC	4 cut(s)	101, 586, 661, 800
Bsp19I	CCATGG	1 cut(s)	698
BspLI	GGNNCC	1 cut(s)	574
BsrDI	GCAATG	3 cut(s)	183, 216, 613
BsrI	ACTGG	5 cut(s)	73, 382, 529, 637, 713
BssECI	CCNNGG	3 cut(s)	468, 576, 698
BssMI	GATC	4 cut(s)	101, 586, 661, 800
BssT1I	CCWWGG	3 cut(s)	468, 576, 698
Bst2UI	CCWGG	3 cut(s)	261, 517, 809
Bst4CI	ACNGT	1 cut(s)	229
Bst6I	CTCTTC	1 cut(s)	293
BstC8I	GCNNGC	1 cut(s)	842
BstDSI	CCRYGG	1 cut(s)	698
BstF5I	GGATG	1 cut(s)	397
BstHHI	GCGC	1 cut(s)	6
BstKTI	GATC	4 cut(s)	104, 589, 664, 803
BstMAI	GTCTC	1 cut(s)	41
BstMBI	GATC	4 cut(s)	101, 586, 661, 800
BstNI	CCWGG	3 cut(s)	261, 517, 809
BstSCI	CCNGG	3 cut(s)	259, 515, 807
BstSFI	CTRYAG	1 cut(s)	667
BstV2I	GAAGAC	1 cut(s)	230
BstX2I	RGATCY	1 cut(s)	661
BstYI	RGATCY	1 cut(s)	661
BtgI	CCRYGG	1 cut(s)	698
BtgZI	GCGATG	1 cut(s)	594
BtsCI	GGATG	1 cut(s)	397
BtsIMutI	CAGTG	2 cut(s)	80, 389
Cac8I	GCNNGC	1 cut(s)	842
CfoI	GCGC	1 cut(s)	6
Cfr13I	GGNCC	1 cut(s)	572
CsiI	ACCWGGT	2 cut(s)	259, 515
CviAII	CATG	4 cut(s)	7, 699, 714, 747
DpnI	GATC	4 cut(s)	103, 588, 663, 802
DpnII	GATC	4 cut(s)	101, 586, 661, 800
Eam1104I	CTCTTC	1 cut(s)	293
EarI	CTCTTC	1 cut(s)	293
Ecl136II	GAGCTC	1 cut(s)	415
Eco130I	CCWWGG	3 cut(s)	468, 576, 698
Eco24I	GRGCYC	1 cut(s)	417
Eco32I	GATATC	2 cut(s)	283, 742
Eco47I	GGWCC	1 cut(s)	572
Eco53kI	GAGCTC	1 cut(s)	415
EcoICRI	GAGCTC	1 cut(s)	415
EcoO109I	RGGNCCY	1 cut(s)	572
EcoRII	CCWGG	3 cut(s)	259, 515, 807
EcoRV	GATATC	2 cut(s)	283, 742
EcoT14I	CCWWGG	3 cut(s)	468, 576, 698
EcoT38I	GRGCYC	1 cut(s)	417
ErhI	CCWWGG	3 cut(s)	468, 576, 698
Esp3I	CGTCTC	1 cut(s)	41
FaeI	CATG	4 cut(s)	10, 702, 717, 750
FaiI	YATR	9 cut(s)	8, 130, 444, 530, 554, 679, 700, 715, 748
FaqI	GGGAC	2 cut(s)	228, 348
FatI	CATG	4 cut(s)	6, 698, 713, 746
FokI	GGATG	1 cut(s)	404
FriOI	GRGCYC	1 cut(s)	417
FspAI	RTGCGCAY	1 cut(s)	5
FspBI	CTAG	1 cut(s)	276
FspI	TGCGCA	1 cut(s)	5
GlaI	GCGC	1 cut(s)	5
GsuI	CTGGAG	1 cut(s)	830
HhaI	GCGC	1 cut(s)	6
Hin1II	CATG	4 cut(s)	10, 702, 717, 750
Hin6I	GCGC	1 cut(s)	4
HinP1I	GCGC	1 cut(s)	4
HincII	GTYRAC	1 cut(s)	522
HindII	GTYRAC	1 cut(s)	522
HinfI	GANTC	2 cut(s)	311, 812
HphI	GGTGA	2 cut(s)	592, 836
Hpy166II	GTNNAC	4 cut(s)	134, 439, 449, 522
Hpy188I	TCNGA	4 cut(s)	222, 316, 412, 648
Hpy188III	TCNNGA	2 cut(s)	105, 798
Hpy8I	GTNNAC	4 cut(s)	134, 439, 449, 522
HpyAV	CCTTC	2 cut(s)	57, 382
HpyCH4III	ACNGT	1 cut(s)	229
HpyCH4V	TGCA	6 cut(s)	176, 209, 254, 618, 705, 844
Hsp92II	CATG	4 cut(s)	10, 702, 717, 750
HspAI	GCGC	1 cut(s)	4
Kzo9I	GATC	4 cut(s)	101, 586, 661, 800
LweI	GCATC	2 cut(s)	196, 765
MabI	ACCWGGT	2 cut(s)	259, 515
MaeI	CTAG	1 cut(s)	276
MaeIII	GTNAC	1 cut(s)	199
MalI	GATC	4 cut(s)	103, 588, 663, 802
MboI	GATC	4 cut(s)	101, 586, 661, 800
MboII	GAAGA	7 cut(s)	112, 235, 310, 316, 557, 671, 676
MfeI	CAATTG	1 cut(s)	237
MflI	RGATCY	1 cut(s)	661
MhlI	GDGCHC	2 cut(s)	417, 585
MluCI	AATT	7 cut(s)	11, 55, 162, 237, 288, 652, 768
MlyI	GAGTC	1 cut(s)	821
MmeI	TCCRAC	2 cut(s)	194, 709
MseI	TTAA	3 cut(s)	483, 560, 767
MslI	CAYNNNNRTG	1 cut(s)	444
MspR9I	CCNGG	3 cut(s)	261, 517, 809
MunI	CAATTG	1 cut(s)	237
MvaI	CCWGG	3 cut(s)	261, 517, 809
NcoI	CCATGG	1 cut(s)	698
NdeII	GATC	4 cut(s)	101, 586, 661, 800
NlaIII	CATG	4 cut(s)	10, 702, 717, 750
NlaIV	GGNNCC	1 cut(s)	574
NmuCI	GTSAC	1 cut(s)	199
NsbI	TGCGCA	1 cut(s)	5
OliI	CACNNNNGTG	1 cut(s)	444
PfeI	GAWTC	1 cut(s)	311
PfoI	TCCNGGA	1 cut(s)	807
PleI	GAGTC	1 cut(s)	820
PpsI	GAGTC	1 cut(s)	820
PpuMI	RGGWCCY	1 cut(s)	572
Psp124BI	GAGCTC	1 cut(s)	417
Psp5II	RGGWCCY	1 cut(s)	572
Psp6I	CCWGG	3 cut(s)	259, 515, 807
PspGI	CCWGG	3 cut(s)	259, 515, 807
PspN4I	GGNNCC	1 cut(s)	574
PspPI	GGNCC	1 cut(s)	572
PspPPI	RGGWCCY	1 cut(s)	572
PsuI	RGATCY	1 cut(s)	661
RseI	CAYNNNNRTG	1 cut(s)	444
SacI	GAGCTC	1 cut(s)	417
SaqAI	TTAA	3 cut(s)	483, 560, 767
Sau3AI	GATC	4 cut(s)	101, 586, 661, 800
Sau96I	GGNCC	1 cut(s)	572
SchI	GAGTC	1 cut(s)	821
ScrFI	CCNGG	3 cut(s)	261, 517, 809
SduI	GDGCHC	2 cut(s)	417, 585
SetI	ASST	9 cut(s)	65, 265, 399, 417, 521, 552, 582, 605, 833
SexAI	ACCWGGT	2 cut(s)	259, 515
SfaNI	GCATC	2 cut(s)	196, 765
SfcI	CTRYAG	1 cut(s)	667
SinI	GGWCC	1 cut(s)	572
SmiMI	CAYNNNNRTG	1 cut(s)	444
SmlI	CTYRAG	1 cut(s)	796
SmoI	CTYRAG	1 cut(s)	796
Sse9I	AATT	7 cut(s)	11, 55, 162, 237, 288, 652, 768
SspMI	CTAG	1 cut(s)	276
SstI	GAGCTC	1 cut(s)	417
StyD4I	CCNGG	3 cut(s)	259, 515, 807
StyI	CCWWGG	3 cut(s)	468, 576, 698
TaaI	ACNGT	1 cut(s)	229
TaqI	TCGA	2 cut(s)	285, 585
TasI	AATT	7 cut(s)	11, 55, 162, 237, 288, 652, 768
TfiI	GAWTC	1 cut(s)	311
Tru1I	TTAA	3 cut(s)	483, 560, 767
Tru9I	TTAA	3 cut(s)	483, 560, 767
TscAI	CASTG	2 cut(s)	80, 389
TseFI	GTSAC	1 cut(s)	199
Tsp45I	GTSAC	1 cut(s)	199
TspDTI	ATGAA	3 cut(s)	23, 560, 794
TspRI	CASTG	2 cut(s)	80, 389
VpaK11BI	GGWCC	1 cut(s)	572
XapI	RAATTY	1 cut(s)	55
XcmI	CCANNNNNNNNNTGG	1 cut(s)	705
XspI	CTAG	1 cut(s)	276

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