Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5C

Orthogroup ID

OG0000557

Physical Location & Seq

Genomic Coordinates Reverse (-)

79486235 .. 79505949

Gene Structure 19715 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5CG563900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 798 bp

ATGAAATTTGTTAGGCAACTATTGATTGCATTTGGTGGACTTGCTGGGTTGGAAGAGAGCATTGAGGAGGATCATAACTTAAAGGTATGGTTTCATAGGGATTTGGTTTGGGACTCGAATGTTAGACGCTGGGAAGGTGCAAGCCTTTGCTCCTCGAGCTCAATTGACTACACAGATCGATTTGCGGCATCTGCTATTTCTCCCAAGACAAGAACCATCCCACCACACAGTTTCTGTATCAAGTTAATCTCAACTATAAGCTCACACCAGAGGGTTCTACTTTCAGCTTCCCACATGCCCAAGTGCAATATCTTCCAGCTGATTGAGACTGAACAAGTACTGCATTTTGGAACTGAACAGGATGAAGATCATTGTCCTTTCCATTTGAAAACTGGCCGGAGCTTGTCGGTTTGGTCGACATTGCAGCAGAGTCCTTTCTACCCAGATAAATCATCCACACTGCTTATCAAGAACATGTACAATGGTCCTGGCCTTACTTGGGAGCAGGATGAGGGGCTTGAGCAATCAGATTCATTGCAAGTTCACTTTGGTGGAGATTCAGGTGACGCAGGGCATTACATATATATAGGAGTGGTCTACTTGGTGATGATCATAGCATCGCCCAATCTAGAGGTTCATGAGCTGGATGAGCTCCCGGAGCAGTGGCGGAGGTTTAAGCTGGCTTGGCTTTGTAAGGACCTGCCGTCGCGTAATTCCGGGGCTTTGATTCGGATTCTCAATGCCCAAAAGAAGTGGATGAGGCAAGAGGACGCCAAGAACTCTGGTGCCACATTTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000375 GO:0000377 GO:0000398 GO:0003674 GO:0003676 GO:0003723 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005681 GO:0006139 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0008380 GO:0009987 GO:0010467 GO:0016070 GO:0016071 GO:0030628 GO:0032991 GO:0034641 GO:0036002 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0046483 GO:0071704 GO:0089701 GO:0090304 GO:0097159 GO:1901360 GO:1901363 GO:1990904

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

RRM_1 zf-CCCH

Protein Analysis

265

Amino Acids

30.16

Weight (kDa)

5.99

Isoelectric Point (pI)

62.89

Instability Index

Protein Domains (Pfam)

No Pfam domains detected for this protein.

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)

Image

Tree File

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Publication-ready

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

Orthologous Genes (Group: OG0000557)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G10320 AT1G10320
fragaria_vesca	FvH4_1g01270 FvH4_5g28020
malus_domestica	MD05G1262900.v1.1 MD05G1263000.v1.1 MD15G1442200.v1.1 MD15G1442300.v1.1
prunus_persica	Prupe.1G585000_v2.0.a1
pyrus_communis	pycom05g24740 pycom15g39000
rosa_chinensis	RchiOBHm_Chr1g0376021 RchiOBHm_Chr2g0152801 RchiOBHm_Chr6g0272511 RchiOBHm_Chr6g0272531 RchiOBHm_Chr6g0289931 RchiOBHm_Chr6g0289941 RchiOBHm_Chr6g0302241 RchiOBHm_Chr7g0221381 RchiOBHm_Chr7g0221391 RchiOBHm_Chr7g0221411
rosa_laevigata	RLG00000000942 RLG00000002158 RLG00000013669 RLG00000013670
rosa_multiflora	Rmu_co8352637.1_g000001 Rmu_co8463189.1_g000001 Rmu_sc0000092.1_g000005 Rmu_sc0001575.1_g000019 Rmu_sc0001579.1_g000007 Rmu_sc0002847.1_g000017 Rmu_sc0009283.1_g000001 Rmu_sc0018146.1_g000002 Rmu_sc0026927.1_g000002 Rmu_sc0026927.1_g000003 Rmu_sc0031601.1_g000001
rosa_roxburghii	Rroxscaffold_3G00238370 Rroxscaffold_5G00353980 Rroxscaffold_6G00399580 Rroxscaffold_7G00181850 Rroxscaffold_7G00196190 Rroxscaffold_7G00212980
rosa_rugosa	Rorug02G0202700 Rorug06G0053300 Rorug06G0073400 Rorug06G0208900 Rorug07G0202300 Rorug07G0202300 Rorug07G0202300
rosa_samantha	Rh1AG059200 Rh1AG066100 Rh1AG285800 Rh3AG222700 Rh3DG354600 Rh5BG508200 Rh5BG539300 Rh5BG541200 Rh5CG264600 Rh5CG531900 Rh5CG562800 Rh5CG563900 Rh5DG285300 Rh6AG094100 Rh6AG186000 Rh6AG186100 Rh6AG254700 Rh6BG189200 Rh6BG258000 Rh6CG186900 Rh6CG187000 Rh6DG178300 Rh6DG178700 Rh6DG349500 Rh7AG341800 Rh7AG341900 Rh7AG458600 Rh7BG332500 Rh7CG359600 Rh7DG340200 Rh7DG340300
rosa_wichuraiana	Rw2G036370 Rw6G016030 Rw7G029050

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	708
AccB1I	GGYRCC	1 cut(s)	785
AccI	GTMKAC	2 cut(s)	416, 597
AccII	CGCG	1 cut(s)	709
AciI	CCGC	2 cut(s)	185, 667
AclWI	GGATC	1 cut(s)	78
AcoI	YGGCCR	1 cut(s)	394
AcsI	RAATTY	1 cut(s)	5
AcyI	GRCGYC	1 cut(s)	771
AfaI	GTAC	2 cut(s)	339, 479
AfiI	CCNNNNNNNGG	1 cut(s)	499
AflIII	ACRYGT	1 cut(s)	474
AgsI	TTSAA	1 cut(s)	388
AhdI	GACNNNNNGTC	1 cut(s)	703
AjnI	CCWGG	1 cut(s)	487
AleI	CACNNNNGTG	1 cut(s)	549
AluBI	AGCT	8 cut(s)	159, 261, 287, 319, 402, 643, 652, 679
AluI	AGCT	8 cut(s)	159, 261, 287, 319, 402, 643, 652, 679
Alw21I	GWGCWC	2 cut(s)	161, 654
Alw26I	GTCTC	1 cut(s)	320
AlwI	GGATC	1 cut(s)	78
AlwNI	CAGNNNCTG	1 cut(s)	234
Ama87I	CYCGRG	1 cut(s)	154
AoxI	GGCC	2 cut(s)	394, 490
ApeKI	GCWGC	1 cut(s)	424
ApoI	RAATTY	1 cut(s)	5
AspS9I	GGNCC	2 cut(s)	485, 697
AsuC2I	CCSGG	2 cut(s)	656, 718
AsuHPI	GGTGA	2 cut(s)	575, 616
AvaI	CYCGRG	1 cut(s)	154
AvaII	GGWCC	2 cut(s)	485, 697
BanI	GGYRCC	1 cut(s)	785
BanII	GRGCYC	2 cut(s)	161, 654
Bbv12I	GWGCWC	2 cut(s)	161, 654
BbvI	GCAGC	1 cut(s)	436
BccI	CCATC	1 cut(s)	224
BceAI	ACGGC	1 cut(s)	688
BciT130I	CCWGG	1 cut(s)	489
BclI	TGATCA	1 cut(s)	609
BcnI	CCSGG	2 cut(s)	656, 718
BcoDI	GTCTC	1 cut(s)	320
BfaI	CTAG	1 cut(s)	629
BfuAI	ACCTGC	1 cut(s)	708
BisI	GCNGC	2 cut(s)	186, 425
BlsI	GCNGC	2 cut(s)	187, 426
BmcAI	AGTACT	1 cut(s)	339
Bme1390I	CCNGG	3 cut(s)	489, 656, 718
Bme18I	GGWCC	2 cut(s)	485, 697
BmeRI	GACNNNNNGTC	1 cut(s)	703
BmeT110I	CYCGRG	1 cut(s)	154
BmgT120I	GGNCC	2 cut(s)	485, 697
BmiI	GGNNCC	1 cut(s)	787
BmrFI	CCNGG	3 cut(s)	489, 656, 718
BmsI	GCATC	2 cut(s)	197, 626
BpuEI	CTTGAG	1 cut(s)	539
BpuMI	CCSGG	2 cut(s)	656, 718
Bsa29I	ATCGAT	1 cut(s)	178
BsaBI	GATNNNNATC	1 cut(s)	366
BsaHI	GRCGYC	1 cut(s)	771
BsaJI	CCNNGG	1 cut(s)	717
Bsc4I	CCNNNNNNNGG	1 cut(s)	499
Bse1I	ACTGG	1 cut(s)	397
Bse3DI	GCAATG	2 cut(s)	419, 533
Bse8I	GATNNNNATC	1 cut(s)	366
BseBI	CCWGG	1 cut(s)	489
BseCI	ATCGAT	1 cut(s)	178
BseDI	CCNNGG	1 cut(s)	717
BseGI	GGATG	6 cut(s)	216, 367, 452, 514, 652, 762
BseJI	GATNNNNATC	1 cut(s)	366
BseLI	CCNNNNNNNGG	1 cut(s)	499
BseMI	GCAATG	2 cut(s)	419, 533
BseNI	ACTGG	1 cut(s)	397
BseRI	GAGGAG	2 cut(s)	80, 142
BseXI	GCAGC	1 cut(s)	436
BseYI	CCCAGC	2 cut(s)	44, 129
Bsh1236I	CGCG	1 cut(s)	709
BshFI	GGCC	2 cut(s)	396, 492
BshNI	GGYRCC	1 cut(s)	785
BshVI	ATCGAT	1 cut(s)	178
BsiHKAI	GWGCWC	2 cut(s)	161, 654
BsiHKCI	CYCGRG	1 cut(s)	154
BsiSI	CCGG	3 cut(s)	397, 656, 717
BslFI	GGGAC	1 cut(s)	125
BslI	CCNNNNNNNGG	1 cut(s)	499
BsmAI	GTCTC	1 cut(s)	320
BsmFI	GGGAC	1 cut(s)	125
BsnI	GGCC	2 cut(s)	396, 492
BsoBI	CYCGRG	1 cut(s)	154
Bsp1286I	GDGCHC	2 cut(s)	161, 654
Bsp1407I	TGTACA	1 cut(s)	477
Bsp143I	GATC	4 cut(s)	70, 175, 367, 609
BspACI	CCGC	2 cut(s)	185, 667
BspANI	GGCC	2 cut(s)	396, 492
BspDI	ATCGAT	1 cut(s)	178
BspFNI	CGCG	1 cut(s)	709
BspHI	TCATGA	1 cut(s)	637
BspLI	GGNNCC	1 cut(s)	787
BspMI	ACCTGC	1 cut(s)	708
BspPI	GGATC	1 cut(s)	78
BspT107I	GGYRCC	1 cut(s)	785
BsrDI	GCAATG	2 cut(s)	419, 533
BsrGI	TGTACA	1 cut(s)	477
BsrI	ACTGG	1 cut(s)	397
BssECI	CCNNGG	1 cut(s)	717
BssMI	GATC	4 cut(s)	70, 175, 367, 609
BssNI	GRCGYC	1 cut(s)	771
Bst2UI	CCWGG	1 cut(s)	489
Bst4CI	ACNGT	1 cut(s)	230
Bst6I	CTCTTC	1 cut(s)	48
BstACI	GRCGYC	1 cut(s)	771
BstAUI	TGTACA	1 cut(s)	477
BstC8I	GCNNGC	2 cut(s)	142, 681
BstF5I	GGATG	6 cut(s)	216, 367, 452, 514, 652, 762
BstFNI	CGCG	1 cut(s)	709
BstKTI	GATC	4 cut(s)	73, 178, 370, 612
BstMAI	GTCTC	1 cut(s)	320
BstMBI	GATC	4 cut(s)	70, 175, 367, 609
BstMWI	GCNNNNNNNGC	5 cut(s)	156, 191, 649, 658, 685
BstNI	CCWGG	1 cut(s)	489
BstNSI	RCATGY	2 cut(s)	298, 478
BstSCI	CCNGG	3 cut(s)	487, 654, 716
BstUI	CGCG	1 cut(s)	709
BstV1I	GCAGC	1 cut(s)	436
Bsu15I	ATCGAT	1 cut(s)	178
BsuRI	GGCC	2 cut(s)	396, 492
BsuTUI	ATCGAT	1 cut(s)	178
BtgZI	GCGATG	1 cut(s)	603
BtsCI	GGATG	6 cut(s)	216, 367, 452, 514, 652, 762
BtsI	GCAGTG	2 cut(s)	458, 668
BtsIMutI	CAGTG	2 cut(s)	458, 668
BveI	ACCTGC	1 cut(s)	708
Cac8I	GCNNGC	2 cut(s)	142, 681
CaiI	CAGNNNCTG	1 cut(s)	234
CciI	TCATGA	1 cut(s)	637
Cfr13I	GGNCC	2 cut(s)	485, 697
ClaI	ATCGAT	1 cut(s)	178
CseI	GACGC	3 cut(s)	135, 575, 779
Csp6I	GTAC	2 cut(s)	338, 478
CspCI	CAANNNNNGTGG	2 cut(s)	734, 769
CviAII	CATG	3 cut(s)	295, 475, 638
CviQI	GTAC	2 cut(s)	338, 478
DpnI	GATC	4 cut(s)	72, 177, 369, 611
DpnII	GATC	4 cut(s)	70, 175, 367, 609
DriI	GACNNNNNGTC	1 cut(s)	703
EaeI	YGGCCR	1 cut(s)	394
Eam1104I	CTCTTC	1 cut(s)	48
Eam1105I	GACNNNNNGTC	1 cut(s)	703
EarI	CTCTTC	1 cut(s)	48
EciI	GGCGGA	1 cut(s)	682
Ecl136II	GAGCTC	2 cut(s)	159, 652
Eco24I	GRGCYC	2 cut(s)	161, 654
Eco47I	GGWCC	2 cut(s)	485, 697
Eco53kI	GAGCTC	2 cut(s)	159, 652
Eco88I	CYCGRG	1 cut(s)	154
EcoICRI	GAGCTC	2 cut(s)	159, 652
EcoO109I	RGGNCCY	1 cut(s)	697
EcoRII	CCWGG	1 cut(s)	487
EcoT38I	GRGCYC	2 cut(s)	161, 654
FaeI	CATG	3 cut(s)	298, 478, 641
FaqI	GGGAC	1 cut(s)	125
FatI	CATG	3 cut(s)	294, 474, 637
FbaI	TGATCA	1 cut(s)	609
FblI	GTMKAC	2 cut(s)	416, 597
Fnu4HI	GCNGC	2 cut(s)	186, 425
FokI	GGATG	6 cut(s)	203, 374, 439, 521, 659, 769
FriOI	GRGCYC	2 cut(s)	161, 654
Fsp4HI	GCNGC	2 cut(s)	186, 425
FspBI	CTAG	1 cut(s)	629
GluI	GCNGC	2 cut(s)	186, 425
GsaI	CCCAGC	2 cut(s)	48, 133
HaeIII	GGCC	2 cut(s)	396, 492
HapII	CCGG	3 cut(s)	397, 656, 717
HgaI	GACGC	3 cut(s)	135, 575, 779
Hin1I	GRCGYC	1 cut(s)	771
Hin1II	CATG	3 cut(s)	298, 478, 641
HincII	GTYRAC	1 cut(s)	417
HindII	GTYRAC	1 cut(s)	417
HinfI	GANTC	6 cut(s)	113, 430, 530, 557, 727, 733
HpaII	CCGG	3 cut(s)	397, 656, 717
HphI	GGTGA	2 cut(s)	575, 616
Hpy166II	GTNNAC	4 cut(s)	38, 417, 544, 598
Hpy188I	TCNGA	2 cut(s)	529, 732
Hpy188III	TCNNGA	3 cut(s)	469, 629, 638
Hpy8I	GTNNAC	4 cut(s)	38, 417, 544, 598
Hpy99I	CGWCG	1 cut(s)	709
HpyAV	CCTTC	1 cut(s)	128
HpyCH4III	ACNGT	1 cut(s)	230
HpyCH4V	TGCA	6 cut(s)	29, 140, 306, 343, 424, 538
HpyF10VI	GCNNNNNNNGC	5 cut(s)	156, 191, 649, 658, 685
Hsp92I	GRCGYC	1 cut(s)	771
Hsp92II	CATG	3 cut(s)	298, 478, 641
Ksp22I	TGATCA	1 cut(s)	609
Kzo9I	GATC	4 cut(s)	70, 175, 367, 609
LmnI	GCTCC	5 cut(s)	155, 399, 502, 657, 658
Lsp1109I	GCAGC	1 cut(s)	436
LweI	GCATC	2 cut(s)	197, 626
MaeI	CTAG	1 cut(s)	629
MaeIII	GTNAC	1 cut(s)	563
MalI	GATC	4 cut(s)	72, 177, 369, 611
MboI	GATC	4 cut(s)	70, 175, 367, 609
MboII	GAAGA	3 cut(s)	65, 304, 377
MfeI	CAATTG	1 cut(s)	162
MhlI	GDGCHC	2 cut(s)	161, 654
MluCI	AATT	3 cut(s)	5, 162, 712
MlyI	GAGTC	2 cut(s)	107, 439
MmeI	TCCRAC	1 cut(s)	30
MnlI	CCTC	9 cut(s)	58, 61, 163, 264, 505, 625, 663, 753, 760
MseI	TTAA	3 cut(s)	80, 245, 675
MslI	CAYNNNNRTG	1 cut(s)	549
MspA1I	CMGCKG	1 cut(s)	319
MspI	CCGG	3 cut(s)	397, 656, 717
MspR9I	CCNGG	3 cut(s)	489, 656, 718
MunI	CAATTG	1 cut(s)	162
MvaI	CCWGG	1 cut(s)	489
MvnI	CGCG	1 cut(s)	709
MwoI	GCNNNNNNNGC	5 cut(s)	156, 191, 649, 658, 685
NciI	CCSGG	2 cut(s)	656, 718
NdeII	GATC	4 cut(s)	70, 175, 367, 609
NlaIII	CATG	3 cut(s)	298, 478, 641
NlaIV	GGNNCC	1 cut(s)	787
NmuCI	GTSAC	1 cut(s)	563
NspI	RCATGY	2 cut(s)	298, 478
OliI	CACNNNNGTG	1 cut(s)	549
PaeR7I	CTCGAG	1 cut(s)	154
PagI	TCATGA	1 cut(s)	637
PciI	ACATGT	1 cut(s)	474
PcsI	WCGNNNNNNNCGW	1 cut(s)	413
PfeI	GAWTC	4 cut(s)	530, 557, 727, 733
PfoI	TCCNGGA	1 cut(s)	654
PkrI	GCNGC	2 cut(s)	187, 426
PleI	GAGTC	2 cut(s)	107, 438
PpsI	GAGTC	2 cut(s)	107, 438
PpuMI	RGGWCCY	1 cut(s)	697
PscI	ACATGT	1 cut(s)	474
Psp124BI	GAGCTC	2 cut(s)	161, 654
Psp5II	RGGWCCY	1 cut(s)	697
Psp6I	CCWGG	1 cut(s)	487
PspFI	CCCAGC	2 cut(s)	44, 129
PspGI	CCWGG	1 cut(s)	487
PspN4I	GGNNCC	1 cut(s)	787
PspPI	GGNCC	2 cut(s)	485, 697
PspPPI	RGGWCCY	1 cut(s)	697
PspXI	VCTCGAGB	1 cut(s)	154
PstNI	CAGNNNCTG	1 cut(s)	234
PvuII	CAGCTG	1 cut(s)	319
RsaI	GTAC	2 cut(s)	339, 479
RsaNI	GTAC	2 cut(s)	338, 478
RseI	CAYNNNNRTG	1 cut(s)	549
SacI	GAGCTC	2 cut(s)	161, 654
SalI	GTCGAC	1 cut(s)	415
SaqAI	TTAA	3 cut(s)	80, 245, 675
SatI	GCNGC	2 cut(s)	186, 425
Sau3AI	GATC	4 cut(s)	70, 175, 367, 609
Sau96I	GGNCC	2 cut(s)	485, 697
ScaI	AGTACT	1 cut(s)	339
SchI	GAGTC	2 cut(s)	107, 439
ScrFI	CCNGG	3 cut(s)	489, 656, 718
SduI	GDGCHC	2 cut(s)	161, 654
SfaNI	GCATC	2 cut(s)	197, 626
Sfr274I	CTCGAG	1 cut(s)	154
SinI	GGWCC	2 cut(s)	485, 697
SlaI	CTCGAG	1 cut(s)	154
SmiMI	CAYNNNNRTG	1 cut(s)	549
SmlI	CTYRAG	2 cut(s)	154, 518
SmoI	CTYRAG	2 cut(s)	154, 518
Sse9I	AATT	3 cut(s)	5, 162, 712
SsiI	CCGC	2 cut(s)	185, 667
SspMI	CTAG	1 cut(s)	629
SstI	GAGCTC	2 cut(s)	161, 654
StyD4I	CCNGG	3 cut(s)	487, 654, 716
TaaI	ACNGT	1 cut(s)	230
TaqI	TCGA	4 cut(s)	116, 155, 178, 416
TasI	AATT	3 cut(s)	5, 162, 712
TatI	WGTACW	2 cut(s)	337, 477
TauI	GCSGC	1 cut(s)	188
TfiI	GAWTC	4 cut(s)	530, 557, 727, 733
Tru1I	TTAA	3 cut(s)	80, 245, 675
Tru9I	TTAA	3 cut(s)	80, 245, 675
TscAI	CASTG	2 cut(s)	465, 668
TseFI	GTSAC	1 cut(s)	563
TseI	GCWGC	1 cut(s)	424
Tsp45I	GTSAC	1 cut(s)	563
TspDTI	ATGAA	5 cut(s)	17, 83, 378, 522, 626
TspRI	CASTG	2 cut(s)	465, 668
VpaK11BI	GGWCC	2 cut(s)	485, 697
XapI	RAATTY	1 cut(s)	5
XbaI	TCTAGA	1 cut(s)	628
XceI	RCATGY	2 cut(s)	298, 478
XcmI	CCANNNNNNNNNTGG	1 cut(s)	389
XhoI	CTCGAG	1 cut(s)	154
XmiI	GTMKAC	2 cut(s)	416, 597
XspI	CTAG	1 cut(s)	629
ZrmI	AGTACT	1 cut(s)	339

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