Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0013632

Physical Location & Seq

Genomic Coordinates Reverse (-)

8209600 .. 8224483

Gene Structure 14884 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG090800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1029 bp

ATGGGGAAGATGGAGAATACTTGGGTTGCTTTGGTGGATATAGTGACAGCTGTAACCCTAAGGGCAAAGAGTGAAGGCCGATTGTCATCTCAGAGTTCACCTCATGGCTACTCTTCTGGTGGGAGAAGAAACTATGGCAAAGAGCTTAAAACATCTGTAGCACAAAATGAATGCTTCAAGTGTGGTCGTCCAGGACATTGGGCCAAAGATTGCCCTTCAGCAGGTCATGATCAAGACATGTATGGAAGGAAAATGGGAAGGGCACCCTTGGGTTGGTGCAACTATGGGGGAGGACATAGTTCATCTGTGGGGAGAAATGAATGCTTCAAGTGTGGCCGCCCAGGACATTGGGCACGAGATTGCCCTTCTGCAACTGATCAGGAAATGCATGGAAGTGGTCAAGCGGGAGGGGACGACTCAAACAATGACTACATTGTTTACTCATATGGTGGAAGGAGAAGCACTCACTGGGAAGATGACTGCTTCAAGTGTGGGCGCTCCGGACATTGGCAGCAAGAGTGCCCTTCGTCAAATGGTGGAGGTGGAAACGATATTGGCACTGATGGAACGCGCAGAGAAATTGAGGAATCCGAACTAGTTGAGGGAATTGTCGAAGTTGTCGAAGATGATGTGATGAAGTTGAATAGCGAATGCTCAAGCGATTTGAAGGGCTTGGTTGGAATTGAAAGTCACATTAAGCTATGCATTGCCCCACAAGATAGTTCACCTCCTGGCTACTCTTCTAGTGGGAGGAGAAACTATGGCAAAGAGCTTAAAACATCTGTAGCACAAAATGAATGCTTCAAGTGTGGTCGTCCAGGACATTGGGCCAAATATTTCCCTTCAGCAGGTCATGATCAAGACATGTATGTAACGAAAATGGGAAGGGCATCCTCGGGTTGGAGCAACTATGGGGGAGGAGATAGTTCATCTGTGGGGAGAAATGAATGCTTCAAGTGTGGCCGCCCAGGACAGTGGCCACGAGATTACCCTTCTGCAACTGATCAGGAAATGCATGGAAGTGATTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001101 GO:0003674 GO:0003676 GO:0003677 GO:0003682 GO:0003723 GO:0003729 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005730 GO:0006355 GO:0006950 GO:0008150 GO:0009266 GO:0009409 GO:0009414 GO:0009415 GO:0009628 GO:0009889 GO:0009890 GO:0009892 GO:0009893 GO:0010035 GO:0010468 GO:0010556 GO:0010558 GO:0010604 GO:0010605 GO:0010628 GO:0010629 GO:0016604 GO:0016607 GO:0019219 GO:0019222 GO:0031323 GO:0031324 GO:0031325 GO:0031326 GO:0031327 GO:0031490 GO:0031974 GO:0031981 GO:0033120 GO:0042221 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043484 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0045892 GO:0045934 GO:0045935 GO:0048024 GO:0048026 GO:0048518 GO:0048519 GO:0048522 GO:0048523 GO:0050684 GO:0050685 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051172 GO:0051173 GO:0051252 GO:0051253 GO:0051254 GO:0060255 GO:0065007 GO:0070013 GO:0080090 GO:0097159 GO:1901363 GO:1901700 GO:1902679 GO:1903311 GO:1903313 GO:1903506 GO:1903507 GO:2000112 GO:2000113 GO:2001141

KEGG Pathways

Metabolic & Signaling

ko03040 map03040

Pfam Domains

Protein Families

RRM_1 zf-CCHC

Protein Analysis

342

Amino Acids

37.19

Weight (kDa)

6.32

Isoelectric Point (pI)

62.45

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-CCHC	PF00098	57 - 73	4.4e-08	Zinc knuckle
zf-CCHC	PF00098	107 - 123	2e-08	Zinc knuckle

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0013632)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_3g06761
rosa_chinensis	RchiOBHm_Chr5g0012371
rosa_laevigata	RLG00000031908 RLG00000031909
rosa_roxburghii	Rroxscaffold_1G00064280 Rroxscaffold_1G00064290 Rroxscaffold_3G00218760
rosa_rugosa	Rorug05G0000700 Rorug05G0000700 Rorug07G0346600
rosa_samantha	Rh5AG095000 Rh5AG095100 Rh5BG091300 Rh5BG091400 Rh5CG104300 Rh5DG090800
rosa_wichuraiana	Rw5G008310 Rw7G042340

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	2 cut(s)	212, 839
AccB1I	GGYRCC	1 cut(s)	262
AccII	CGCG	1 cut(s)	571
AccIII	TCCGGA	1 cut(s)	500
AciI	CCGC	3 cut(s)	337, 404, 964
AcoI	YGGCCR	3 cut(s)	334, 961, 977
AcuI	CTGAAG	2 cut(s)	201, 828
AfiI	CCNNNNNNNGG	5 cut(s)	221, 273, 507, 848, 900
AflIII	ACRYGT	2 cut(s)	237, 864
AgsI	TTSAA	8 cut(s)	178, 328, 487, 643, 667, 686, 805, 955
AhlI	ACTAGT	1 cut(s)	595
AjnI	CCWGG	5 cut(s)	190, 340, 730, 817, 967
AluBI	AGCT	4 cut(s)	50, 145, 700, 772
AluI	AGCT	4 cut(s)	50, 145, 700, 772
Ama87I	CYCGRG	1 cut(s)	895
Aor13HI	TCCGGA	1 cut(s)	500
AoxI	GGCC	6 cut(s)	76, 201, 334, 828, 961, 977
ApeKI	GCWGC	1 cut(s)	511
AspLEI	GCGC	2 cut(s)	498, 573
AspS9I	GGNCC	2 cut(s)	201, 828
AsuHPI	GGTGA	2 cut(s)	90, 717
AvaI	CYCGRG	1 cut(s)	895
AxyI	CCTNAGG	1 cut(s)	59
BaeGI	GKGCMC	3 cut(s)	265, 355, 524
BalI	TGGCCA	1 cut(s)	979
BanI	GGYRCC	1 cut(s)	262
BauI	CACGAG	2 cut(s)	354, 981
BbvI	GCAGC	1 cut(s)	523
BccI	CCATC	2 cut(s)	4, 557
BciT130I	CCWGG	5 cut(s)	192, 342, 732, 819, 969
BclI	TGATCA	4 cut(s)	229, 376, 856, 1003
BcuI	ACTAGT	1 cut(s)	595
BfaI	CTAG	2 cut(s)	596, 744
BfmI	CTRYAG	2 cut(s)	156, 783
BfoI	RGCGCY	1 cut(s)	499
BfuAI	ACCTGC	2 cut(s)	212, 839
BisI	GCNGC	3 cut(s)	337, 512, 964
BlsI	GCNGC	3 cut(s)	338, 513, 965
Bme1390I	CCNGG	5 cut(s)	192, 342, 732, 819, 969
BmeT110I	CYCGRG	1 cut(s)	895
BmgT120I	GGNCC	2 cut(s)	201, 828
BmiI	GGNNCC	1 cut(s)	264
BmrFI	CCNGG	5 cut(s)	192, 342, 732, 819, 969
BmrI	ACTGGG	1 cut(s)	478
BmsI	GCATC	1 cut(s)	899
BmuI	ACTGGG	1 cut(s)	478
BplI	GAGNNNNNCTC	4 cut(s)	85, 117, 448, 480
BpuEI	CTTGAG	1 cut(s)	640
BsaBI	GATNNNNATC	1 cut(s)	85
BsaJI	CCNNGG	4 cut(s)	267, 340, 894, 967
BsaWI	WCCGGW	1 cut(s)	500
Bsc4I	CCNNNNNNNGG	5 cut(s)	221, 273, 507, 848, 900
Bse1I	ACTGG	1 cut(s)	473
Bse21I	CCTNAGG	1 cut(s)	59
Bse3DI	GCAATG	1 cut(s)	705
Bse8I	GATNNNNATC	1 cut(s)	85
BseAI	TCCGGA	1 cut(s)	500
BseBI	CCWGG	5 cut(s)	192, 342, 732, 819, 969
BseDI	CCNNGG	4 cut(s)	267, 340, 894, 967
BseGI	GGATG	1 cut(s)	890
BseJI	GATNNNNATC	1 cut(s)	85
BseLI	CCNNNNNNNGG	5 cut(s)	221, 273, 507, 848, 900
BseMI	GCAATG	1 cut(s)	705
BseMII	CTCAG	1 cut(s)	104
BseNI	ACTGG	1 cut(s)	473
BseRI	GAGGAG	2 cut(s)	766, 933
BseSI	GKGCMC	3 cut(s)	265, 355, 524
BseXI	GCAGC	1 cut(s)	523
Bsh1236I	CGCG	1 cut(s)	571
BshFI	GGCC	6 cut(s)	78, 203, 336, 830, 963, 979
BshNI	GGYRCC	1 cut(s)	262
BsiHKCI	CYCGRG	1 cut(s)	895
BsiSI	CCGG	1 cut(s)	501
BslFI	GGGAC	1 cut(s)	425
BslI	CCNNNNNNNGG	5 cut(s)	221, 273, 507, 848, 900
BsmFI	GGGAC	1 cut(s)	425
BsmI	GAATGC	5 cut(s)	176, 326, 656, 803, 953
BsnI	GGCC	6 cut(s)	78, 203, 336, 830, 963, 979
BsoBI	CYCGRG	1 cut(s)	895
Bsp1286I	GDGCHC	3 cut(s)	265, 355, 524
Bsp13I	TCCGGA	1 cut(s)	500
Bsp143I	GATC	4 cut(s)	229, 376, 856, 1003
BspACI	CCGC	3 cut(s)	337, 404, 964
BspANI	GGCC	6 cut(s)	78, 203, 336, 830, 963, 979
BspCNI	CTCAG	1 cut(s)	103
BspEI	TCCGGA	1 cut(s)	500
BspFNI	CGCG	1 cut(s)	571
BspHI	TCATGA	2 cut(s)	226, 853
BspLI	GGNNCC	1 cut(s)	264
BspMI	ACCTGC	2 cut(s)	212, 839
BspT107I	GGYRCC	1 cut(s)	262
BsrDI	GCAATG	1 cut(s)	705
BsrI	ACTGG	1 cut(s)	473
BssECI	CCNNGG	4 cut(s)	267, 340, 894, 967
BssMI	GATC	4 cut(s)	229, 376, 856, 1003
BssSI	CACGAG	2 cut(s)	354, 981
BssT1I	CCWWGG	1 cut(s)	267
Bst2BI	CACGAG	2 cut(s)	354, 981
Bst2UI	CCWGG	5 cut(s)	192, 342, 732, 819, 969
Bst4CI	ACNGT	1 cut(s)	975
Bst6I	CTCTTC	2 cut(s)	118, 745
BstDEI	CTNAG	2 cut(s)	59, 90
BstENI	CCTNNNNNAGG	2 cut(s)	219, 846
BstF5I	GGATG	1 cut(s)	890
BstFNI	CGCG	1 cut(s)	571
BstH2I	RGCGCY	1 cut(s)	499
BstHHI	GCGC	2 cut(s)	498, 573
BstKTI	GATC	4 cut(s)	232, 379, 859, 1006
BstMBI	GATC	4 cut(s)	229, 376, 856, 1003
BstNI	CCWGG	5 cut(s)	192, 342, 732, 819, 969
BstNSI	RCATGY	2 cut(s)	241, 868
BstSCI	CCNGG	5 cut(s)	190, 340, 730, 817, 967
BstSFI	CTRYAG	2 cut(s)	156, 783
BstSLI	GKGCMC	3 cut(s)	265, 355, 524
BstUI	CGCG	1 cut(s)	571
BstV1I	GCAGC	1 cut(s)	523
BstXI	CCANNNNNNTGG	4 cut(s)	198, 348, 825, 975
Bsu36I	CCTNAGG	1 cut(s)	59
BsuRI	GGCC	6 cut(s)	78, 203, 336, 830, 963, 979
BtsCI	GGATG	1 cut(s)	890
BtsIMutI	CAGTG	3 cut(s)	466, 558, 980
BveI	ACCTGC	2 cut(s)	212, 839
CciI	TCATGA	2 cut(s)	226, 853
CfoI	GCGC	2 cut(s)	498, 573
Cfr13I	GGNCC	2 cut(s)	201, 828
CviAII	CATG	7 cut(s)	104, 227, 238, 389, 854, 865, 1016
DdeI	CTNAG	2 cut(s)	59, 90
DpnI	GATC	4 cut(s)	231, 378, 858, 1005
DpnII	GATC	4 cut(s)	229, 376, 856, 1003
EaeI	YGGCCR	3 cut(s)	334, 961, 977
Eam1104I	CTCTTC	2 cut(s)	118, 745
EarI	CTCTTC	2 cut(s)	118, 745
Eco130I	CCWWGG	1 cut(s)	267
Eco57I	CTGAAG	2 cut(s)	201, 828
Eco81I	CCTNAGG	1 cut(s)	59
Eco88I	CYCGRG	1 cut(s)	895
EcoNI	CCTNNNNNAGG	2 cut(s)	219, 846
EcoRII	CCWGG	5 cut(s)	190, 340, 730, 817, 967
EcoT14I	CCWWGG	1 cut(s)	267
EcoT22I	ATGCAT	3 cut(s)	390, 707, 1017
ErhI	CCWWGG	1 cut(s)	267
FaeI	CATG	7 cut(s)	107, 230, 241, 392, 857, 868, 1019
FaqI	GGGAC	1 cut(s)	425
FatI	CATG	7 cut(s)	103, 226, 237, 388, 853, 864, 1015
FauI	CCCGC	1 cut(s)	397
FauNDI	CATATG	1 cut(s)	445
FbaI	TGATCA	4 cut(s)	229, 376, 856, 1003
Fnu4HI	GCNGC	3 cut(s)	337, 512, 964
FokI	GGATG	1 cut(s)	877
Fsp4HI	GCNGC	3 cut(s)	337, 512, 964
FspBI	CTAG	2 cut(s)	596, 744
GlaI	GCGC	2 cut(s)	497, 572
GluI	GCNGC	3 cut(s)	337, 512, 964
HaeII	RGCGCY	1 cut(s)	499
HaeIII	GGCC	6 cut(s)	78, 203, 336, 830, 963, 979
HapII	CCGG	1 cut(s)	501
HhaI	GCGC	2 cut(s)	498, 573
Hin1II	CATG	7 cut(s)	107, 230, 241, 392, 857, 868, 1019
Hin6I	GCGC	2 cut(s)	496, 571
HinP1I	GCGC	2 cut(s)	496, 571
HinfI	GANTC	2 cut(s)	416, 587
HpaII	CCGG	1 cut(s)	501
HphI	GGTGA	2 cut(s)	90, 717
Hpy166II	GTNNAC	3 cut(s)	98, 439, 725
Hpy188I	TCNGA	2 cut(s)	93, 592
Hpy188III	TCNNGA	7 cut(s)	227, 233, 380, 501, 854, 860, 1007
Hpy8I	GTNNAC	3 cut(s)	98, 439, 725
HpyCH4III	ACNGT	1 cut(s)	975
HpyCH4V	TGCA	6 cut(s)	279, 371, 388, 705, 998, 1015
HpyF3I	CTNAG	2 cut(s)	59, 90
Hsp92II	CATG	7 cut(s)	107, 230, 241, 392, 857, 868, 1019
HspAI	GCGC	2 cut(s)	496, 571
Kpn2I	TCCGGA	1 cut(s)	500
Ksp22I	TGATCA	4 cut(s)	229, 376, 856, 1003
Kzo9I	GATC	4 cut(s)	229, 376, 856, 1003
LmnI	GCTCC	2 cut(s)	503, 903
Lsp1109I	GCAGC	1 cut(s)	523
LweI	GCATC	1 cut(s)	899
MaeI	CTAG	2 cut(s)	596, 744
MaeIII	GTNAC	4 cut(s)	43, 52, 689, 871
MalI	GATC	4 cut(s)	231, 378, 858, 1005
MboI	GATC	4 cut(s)	229, 376, 856, 1003
MboII	GAAGA	6 cut(s)	19, 105, 138, 485, 635, 732
MhlI	GDGCHC	3 cut(s)	265, 355, 524
MlsI	TGGCCA	1 cut(s)	979
MluCI	AATT	3 cut(s)	579, 606, 681
MluNI	TGGCCA	1 cut(s)	979
MlyI	GAGTC	1 cut(s)	410
MmeI	TCCRAC	2 cut(s)	658, 881
Mox20I	TGGCCA	1 cut(s)	979
Mph1103I	ATGCAT	3 cut(s)	390, 707, 1017
MroI	TCCGGA	1 cut(s)	500
MscI	TGGCCA	1 cut(s)	979
MseI	TTAA	4 cut(s)	147, 696, 774, 1027
MslI	CAYNNNNRTG	2 cut(s)	393, 1020
Msp20I	TGGCCA	1 cut(s)	979
MspA1I	CMGCKG	1 cut(s)	50
MspI	CCGG	1 cut(s)	501
MspR9I	CCNGG	5 cut(s)	192, 342, 732, 819, 969
Mva1269I	GAATGC	5 cut(s)	176, 326, 656, 803, 953
MvaI	CCWGG	5 cut(s)	192, 342, 732, 819, 969
MvnI	CGCG	1 cut(s)	571
NdeI	CATATG	1 cut(s)	445
NdeII	GATC	4 cut(s)	229, 376, 856, 1003
NlaIII	CATG	7 cut(s)	107, 230, 241, 392, 857, 868, 1019
NlaIV	GGNNCC	1 cut(s)	264
NmuCI	GTSAC	2 cut(s)	43, 689
NsiI	ATGCAT	3 cut(s)	390, 707, 1017
NspI	RCATGY	2 cut(s)	241, 868
PagI	TCATGA	2 cut(s)	226, 853
PciI	ACATGT	2 cut(s)	237, 864
PcsI	WCGNNNNNNNCGW	1 cut(s)	618
PctI	GAATGC	5 cut(s)	176, 326, 656, 803, 953
PfeI	GAWTC	1 cut(s)	587
PfoI	TCCNGGA	2 cut(s)	190, 817
PkrI	GCNGC	3 cut(s)	338, 513, 965
PleI	GAGTC	1 cut(s)	410
PpsI	GAGTC	1 cut(s)	410
PscI	ACATGT	2 cut(s)	237, 864
Psp6I	CCWGG	5 cut(s)	190, 340, 730, 817, 967
PspGI	CCWGG	5 cut(s)	190, 340, 730, 817, 967
PspN4I	GGNNCC	1 cut(s)	264
PspPI	GGNCC	2 cut(s)	201, 828
PvuII	CAGCTG	1 cut(s)	50
RseI	CAYNNNNRTG	2 cut(s)	393, 1020
SaqAI	TTAA	4 cut(s)	147, 696, 774, 1027
SatI	GCNGC	3 cut(s)	337, 512, 964
Sau3AI	GATC	4 cut(s)	229, 376, 856, 1003
Sau96I	GGNCC	2 cut(s)	201, 828
SchI	GAGTC	1 cut(s)	410
ScrFI	CCNGG	5 cut(s)	192, 342, 732, 819, 969
SduI	GDGCHC	3 cut(s)	265, 355, 524
SetI	ASST	9 cut(s)	52, 103, 147, 226, 544, 702, 730, 774, 853
SfaNI	GCATC	1 cut(s)	899
SfcI	CTRYAG	2 cut(s)	156, 783
SmiMI	CAYNNNNRTG	2 cut(s)	393, 1020
SmlI	CTYRAG	1 cut(s)	655
SmoI	CTYRAG	1 cut(s)	655
SpeI	ACTAGT	1 cut(s)	595
Sse9I	AATT	3 cut(s)	579, 606, 681
SsiI	CCGC	3 cut(s)	337, 404, 964
SspI	AATATT	1 cut(s)	836
SspMI	CTAG	2 cut(s)	596, 744
StyD4I	CCNGG	5 cut(s)	190, 340, 730, 817, 967
StyI	CCWWGG	1 cut(s)	267
TaaI	ACNGT	1 cut(s)	975
TaqI	TCGA	2 cut(s)	612, 621
TasI	AATT	3 cut(s)	579, 606, 681
TauI	GCSGC	2 cut(s)	339, 966
TfiI	GAWTC	1 cut(s)	587
Tru1I	TTAA	4 cut(s)	147, 696, 774, 1027
Tru9I	TTAA	4 cut(s)	147, 696, 774, 1027
TscAI	CASTG	3 cut(s)	473, 565, 980
TseFI	GTSAC	2 cut(s)	43, 689
TseI	GCWGC	1 cut(s)	511
Tsp45I	GTSAC	2 cut(s)	43, 689
TspDTI	ATGAA	7 cut(s)	183, 291, 333, 650, 810, 918, 960
TspRI	CASTG	3 cut(s)	473, 565, 980
XagI	CCTNNNNNAGG	2 cut(s)	219, 846
XceI	RCATGY	2 cut(s)	241, 868
XspI	CTAG	2 cut(s)	596, 744
Zsp2I	ATGCAT	3 cut(s)	390, 707, 1017

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