Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2B

Orthogroup ID

OG0012331

Physical Location & Seq

Genomic Coordinates Forward (+)

35776066 .. 35783699

Gene Structure 7634 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2BG307700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1095 bp

ATGGAAGAGCAACAAGTTGCTGCTCCAATTCGTCGTGTCCTTCTCATCTCCGCTGGTGCAAGTCACTCTGTTGCTCTTCTCTCTGGTAATGTTGTCTGCTCTTGGGGACGAGGAGAGGATGGGCAGTTAGGCCATGCTGATGCCGAAGATCGGTTTTCACCTACACATTTGAGCGCATTGGATGGCCATCAAATAGTATCTCTTACTTGTGGAGCTGATCATACAACTGCTTACTCCGACTCACGTTTGGAAGTCTATAGTTGGGGCTGGGGTGACTTTGGGAGATTAGGTCATGGCAATTCTAGCGACTTGTTTACACCTCAGCCAATAAAGGCATTACATGGTCTGAAGATAAGGCAGATTGCTTGTGGAGACAGCCATTGCTTAGCAGTGACGATGGAAGGTCAGGTACAAAGTTGGGGGCGGAATCAAAATGGTCAACTTGGTCTTGGCACCACAGAAGATTCTCTTGTGCCCCAGAAGATTCAAGCGTTTCAGGGAGAGTTTATCAAAATGGTTGCTGCTGGTGCTGAACATACAGCAGCTGTTACAGAAGATGGGACATTGTATGGATGGGGATGGGGCCGCTATGGTAATTTGGGCTTAGGTGATAGAAATGATCGCTTGGTTCCAGAAAAGGTTTCTCTTGGTAATAGTGAGAAGATGGTTATGGTTGCATGTGGGTGGCGGCATACAATATCGGTTTCCTCGTCAGGTCAATTATACACATATGGTTGGAGCAAATATGGTCAACTTGGACATGGTGATTTTGAGGATCACCTTGTACCTCACAAGCTAGAAGCCTTGAGTGACAAATTTATTTCTGAGGTTGCAGGTGGTTGGAGGCATACTATGGCATTAACATCTGATGGAAAACTTTATGGCTGGGGATGGAATAAGTTTGGACAGGTTGGAGTTGGTGACAATTTGGATCACTGTTCCCCTTTGCAAGTTAAATTTCCCAATGAGCAGAAAGTAGTTAAAATATCTTGTGGATGGAGACACACACTTGCTGTTACTGAAAGGCAAAATGTATTTTCATGGGGGAGAGGTACAAATGGACAGCTTGGGCATGGGGAATCTGTTGACCGGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000785 GO:0003674 GO:0003682 GO:0005085 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005694 GO:0005737 GO:0005829 GO:0008150 GO:0009314 GO:0009411 GO:0009416 GO:0009605 GO:0009628 GO:0009649 GO:0010224 GO:0019899 GO:0042752 GO:0042802 GO:0042803 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0044422 GO:0044424 GO:0044427 GO:0044444 GO:0044446 GO:0044464 GO:0046983 GO:0050789 GO:0050896 GO:0051020 GO:0065007 GO:0065009 GO:0098772

KEGG Pathways

Metabolic & Signaling

ko00230 ko00240 ko01100 ko03030 ko03410 ko03420 ko03430 ko03440 ko04120 ko05166 map00230 map00240 map01100 map03030 map03410 map03420 map03430 map03440 map04120 map05166

Pfam Domains

Protein Families

RCC1

Protein Analysis

364

Amino Acids

39.58

Weight (kDa)

6.17

Isoelectric Point (pI)

28.45

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
WD40_RLD	PF25390	10 - 113	8.5e-24	RCC1-like domain
RCC1	PF00415	32 - 77	4.2e-12	Regulator of chromosome condensation (RCC1) repeat
RCC1	PF00415	84 - 131	3.3e-16	Regulator of chromosome condensation (RCC1) repeat
WD40_RLD	PF25390	107 - 361	1.1e-77	RCC1-like domain
RCC1_2	PF13540	118 - 147	7.3e-10	Regulator of chromosome condensation (RCC1) repeat
RCC1	PF00415	134 - 183	1e-16	Regulator of chromosome condensation (RCC1) repeat
RCC1_2	PF13540	173 - 198	6.4e-09	Regulator of chromosome condensation (RCC1) repeat
RCC1	PF00415	186 - 234	7.1e-16	Regulator of chromosome condensation (RCC1) repeat
RCC1_2	PF13540	225 - 251	1.5e-06	Regulator of chromosome condensation (RCC1) repeat
RCC1	PF00415	238 - 287	8.1e-15	Regulator of chromosome condensation (RCC1) repeat
Alsin_RLD	PF25384	239 - 332	2.1e-09	Alsin RCC1-like domain
RCC1_2	PF13540	274 - 303	1.2e-11	Regulator of chromosome condensation (RCC1) repeat
RCC1	PF00415	290 - 339	7.1e-17	Regulator of chromosome condensation (RCC1) repeat
RCC1_2	PF13540	326 - 355	1.9e-10	Regulator of chromosome condensation (RCC1) repeat

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0012331)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G63860
fragaria_vesca	FvH4_1g25000 FvH4_1g25000
malus_domestica	MD15G1136000.v1.1
prunus_persica	Prupe.4G277200_v2.0.a1
pyrus_communis	pycom15g12260
rosa_chinensis	RchiOBHm_Chr2g0122641
rosa_laevigata	RLG00000018697
rosa_multiflora	Rmu_sc0003133.1_g000023
rosa_roxburghii	Rroxscaffold_2G00121410
rosa_rugosa	Rorug02G0240700 Rorug02G0240800 Rorug02G0240900 Rorug02G0241000
rosa_samantha	Rh2AG298800 Rh2BG307700 Rh2CG285800 Rh2DG322400
rosa_wichuraiana	Rw2G023810

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	824
Acc36I	ACCTGC	1 cut(s)	824
AccB1I	GGYRCC	1 cut(s)	452
AciI	CCGC	4 cut(s)	51, 424, 586, 688
AclWI	GGATC	2 cut(s)	783, 939
AcoI	YGGCCR	1 cut(s)	184
AcsI	RAATTY	2 cut(s)	815, 956
AcuI	CTGAAG	1 cut(s)	368
AfaI	GTAC	3 cut(s)	411, 786, 1054
AfiI	CCNNNNNNNGG	1 cut(s)	150
AgeI	ACCGGT	1 cut(s)	1089
AgsI	TTSAA	1 cut(s)	488
AluBI	AGCT	4 cut(s)	215, 545, 796, 1066
AluI	AGCT	4 cut(s)	215, 545, 796, 1066
Alw26I	GTCTC	2 cut(s)	366, 994
AlwI	GGATC	2 cut(s)	783, 939
AlwNI	CAGNNNCTG	1 cut(s)	545
AoxI	GGCC	3 cut(s)	130, 184, 583
ApeKI	GCWGC	3 cut(s)	20, 521, 542
ApoI	RAATTY	2 cut(s)	815, 956
AsiGI	ACCGGT	1 cut(s)	1089
AspLEI	GCGC	1 cut(s)	176
AspS9I	GGNCC	1 cut(s)	583
AsuHPI	GGTGA	6 cut(s)	150, 284, 620, 770, 776, 932
BaeGI	GKGCMC	1 cut(s)	477
BalI	TGGCCA	1 cut(s)	186
BanI	GGYRCC	1 cut(s)	452
BarI	GAAGNNNNNNTAC	2 cut(s)	393, 425
BbvCI	CCTCAGC	1 cut(s)	321
BbvI	GCAGC	3 cut(s)	7, 508, 554
BclI	TGATCA	1 cut(s)	217
BcoDI	GTCTC	2 cut(s)	366, 994
BfaI	CTAG	2 cut(s)	303, 797
BfmI	CTRYAG	1 cut(s)	256
BfuAI	ACCTGC	1 cut(s)	824
BisI	GCNGC	5 cut(s)	21, 522, 543, 586, 689
BlpI	GCTNAGC	1 cut(s)	385
BlsI	GCNGC	5 cut(s)	22, 523, 544, 587, 690
BmgT120I	GGNCC	1 cut(s)	583
BmiI	GGNNCC	3 cut(s)	454, 584, 630
BmsI	GCATC	1 cut(s)	130
Bpu10I	CCTNAGC	2 cut(s)	321, 604
Bpu1102I	GCTNAGC	1 cut(s)	385
BpuEI	CTTGAG	1 cut(s)	826
BsaBI	GATNNNNATC	1 cut(s)	186
BsaWI	WCCGGW	1 cut(s)	1089
BsaXI	ACNNNNNCTCC	2 cut(s)	274, 304
Bsc4I	CCNNNNNNNGG	1 cut(s)	150
Bse118I	RCCGGY	1 cut(s)	1089
Bse3DI	GCAATG	1 cut(s)	379
Bse8I	GATNNNNATC	1 cut(s)	186
BseGI	GGATG	6 cut(s)	124, 187, 578, 584, 896, 1001
BseJI	GATNNNNATC	1 cut(s)	186
BseLI	CCNNNNNNNGG	1 cut(s)	150
BseMI	GCAATG	1 cut(s)	379
BseMII	CTCAG	2 cut(s)	335, 816
BseRI	GAGGAG	1 cut(s)	126
BseSI	GKGCMC	1 cut(s)	477
BseXI	GCAGC	3 cut(s)	7, 508, 554
BseYI	CCCAGC	2 cut(s)	267, 885
BshFI	GGCC	3 cut(s)	132, 186, 585
BshNI	GGYRCC	1 cut(s)	452
BshTI	ACCGGT	1 cut(s)	1089
BsiSI	CCGG	1 cut(s)	1090
BslFI	GGGAC	2 cut(s)	120, 574
BslI	CCNNNNNNNGG	1 cut(s)	150
BsmAI	GTCTC	2 cut(s)	366, 994
BsmFI	GGGAC	2 cut(s)	120, 574
BsnI	GGCC	3 cut(s)	132, 186, 585
Bsp1286I	GDGCHC	1 cut(s)	477
Bsp143I	GATC	5 cut(s)	148, 217, 619, 775, 931
Bsp1720I	GCTNAGC	1 cut(s)	385
BspACI	CCGC	4 cut(s)	51, 424, 586, 688
BspANI	GGCC	3 cut(s)	132, 186, 585
BspCNI	CTCAG	2 cut(s)	334, 817
BspLI	GGNNCC	3 cut(s)	454, 584, 630
BspMI	ACCTGC	1 cut(s)	824
BspPI	GGATC	2 cut(s)	783, 939
BspQI	GCTCTTC	1 cut(s)	81
BspT107I	GGYRCC	1 cut(s)	452
BsrDI	GCAATG	1 cut(s)	379
BsrFI	RCCGGY	1 cut(s)	1089
BssAI	RCCGGY	1 cut(s)	1089
BssMI	GATC	5 cut(s)	148, 217, 619, 775, 931
Bst4CI	ACNGT	1 cut(s)	938
Bst6I	CTCTTC	1 cut(s)	81
BstDEI	CTNAG	4 cut(s)	321, 385, 604, 825
BstF5I	GGATG	6 cut(s)	124, 187, 578, 584, 896, 1001
BstHHI	GCGC	1 cut(s)	176
BstKTI	GATC	5 cut(s)	151, 220, 622, 778, 934
BstMAI	GTCTC	2 cut(s)	366, 994
BstMBI	GATC	5 cut(s)	148, 217, 619, 775, 931
BstMWI	GCNNNNNNNGC	2 cut(s)	303, 527
BstNSI	RCATGY	1 cut(s)	681
BstSFI	CTRYAG	1 cut(s)	256
BstSLI	GKGCMC	1 cut(s)	477
BstV1I	GCAGC	3 cut(s)	7, 508, 554
BsuRI	GGCC	3 cut(s)	132, 186, 585
BtsCI	GGATG	6 cut(s)	124, 187, 578, 584, 896, 1001
BtsI	GCAGTG	1 cut(s)	396
BtsIMutI	CAGTG	2 cut(s)	396, 934
BveI	ACCTGC	1 cut(s)	824
CaiI	CAGNNNCTG	1 cut(s)	545
CfoI	GCGC	1 cut(s)	176
Cfr10I	RCCGGY	1 cut(s)	1089
Cfr13I	GGNCC	1 cut(s)	583
Csp6I	GTAC	3 cut(s)	410, 785, 1053
CspAI	ACCGGT	1 cut(s)	1089
CviAII	CATG	7 cut(s)	134, 293, 341, 678, 761, 1041, 1073
CviQI	GTAC	3 cut(s)	410, 785, 1053
DdeI	CTNAG	4 cut(s)	321, 385, 604, 825
DpnI	GATC	5 cut(s)	150, 219, 621, 777, 933
DpnII	GATC	5 cut(s)	148, 217, 619, 775, 931
EaeI	YGGCCR	1 cut(s)	184
Eam1104I	CTCTTC	1 cut(s)	81
EarI	CTCTTC	1 cut(s)	81
EciI	GGCGGA	1 cut(s)	439
Eco57I	CTGAAG	1 cut(s)	368
FaeI	CATG	7 cut(s)	137, 296, 344, 681, 764, 1044, 1076
FalI	AAGNNNNNCTT	2 cut(s)	453, 485
FaqI	GGGAC	2 cut(s)	120, 574
FatI	CATG	7 cut(s)	133, 292, 340, 677, 760, 1040, 1072
FauNDI	CATATG	1 cut(s)	730
FbaI	TGATCA	1 cut(s)	217
Fnu4HI	GCNGC	5 cut(s)	21, 522, 543, 586, 689
FokI	GGATG	6 cut(s)	131, 194, 585, 591, 903, 1008
Fsp4HI	GCNGC	5 cut(s)	21, 522, 543, 586, 689
FspBI	CTAG	2 cut(s)	303, 797
GlaI	GCGC	1 cut(s)	175
GluI	GCNGC	5 cut(s)	21, 522, 543, 586, 689
GsaI	CCCAGC	2 cut(s)	271, 889
HaeIII	GGCC	3 cut(s)	132, 186, 585
HapII	CCGG	1 cut(s)	1090
HhaI	GCGC	1 cut(s)	176
Hin1II	CATG	7 cut(s)	137, 296, 344, 681, 764, 1044, 1076
Hin6I	GCGC	1 cut(s)	174
HinP1I	GCGC	1 cut(s)	174
HincII	GTYRAC	3 cut(s)	440, 752, 1087
HindII	GTYRAC	3 cut(s)	440, 752, 1087
HinfI	GANTC	5 cut(s)	239, 427, 464, 484, 1079
HpaII	CCGG	1 cut(s)	1090
HphI	GGTGA	6 cut(s)	150, 284, 620, 770, 776, 932
Hpy166II	GTNNAC	4 cut(s)	315, 440, 752, 1087
Hpy188I	TCNGA	4 cut(s)	238, 348, 826, 868
Hpy188III	TCNNGA	1 cut(s)	632
Hpy8I	GTNNAC	4 cut(s)	315, 440, 752, 1087
Hpy99I	CGWCG	1 cut(s)	36
HpyAV	CCTTC	2 cut(s)	50, 395
HpyCH4III	ACNGT	1 cut(s)	938
HpyCH4IV	ACGT	1 cut(s)	244
HpyCH4V	TGCA	4 cut(s)	59, 677, 833, 949
HpyF10VI	GCNNNNNNNGC	2 cut(s)	303, 527
HpyF3I	CTNAG	4 cut(s)	321, 385, 604, 825
HpySE526I	ACGT	1 cut(s)	244
Hsp92II	CATG	7 cut(s)	137, 296, 344, 681, 764, 1044, 1076
HspAI	GCGC	1 cut(s)	174
Ksp22I	TGATCA	1 cut(s)	217
Kzo9I	GATC	5 cut(s)	148, 217, 619, 775, 931
LguI	GCTCTTC	1 cut(s)	81
LmnI	GCTCC	3 cut(s)	28, 212, 738
Lsp1109I	GCAGC	3 cut(s)	7, 508, 554
LweI	GCATC	1 cut(s)	130
MaeI	CTAG	2 cut(s)	303, 797
MaeII	ACGT	1 cut(s)	244
MaeIII	GTNAC	7 cut(s)	62, 272, 391, 547, 809, 920, 1015
MalI	GATC	5 cut(s)	150, 219, 621, 777, 933
MboI	GATC	5 cut(s)	148, 217, 619, 775, 931
MboII	GAAGA	8 cut(s)	17, 68, 158, 361, 473, 493, 566, 673
MhlI	GDGCHC	1 cut(s)	477
MlsI	TGGCCA	1 cut(s)	186
MluCI	AATT	7 cut(s)	27, 298, 595, 719, 815, 925, 956
MluNI	TGGCCA	1 cut(s)	186
MlyI	GAGTC	1 cut(s)	233
MmeI	TCCRAC	4 cut(s)	261, 716, 821, 892
MnlI	CCTC	9 cut(s)	104, 109, 330, 718, 766, 798, 820, 837, 1043
Mox20I	TGGCCA	1 cut(s)	186
MscI	TGGCCA	1 cut(s)	186
MseI	TTAA	3 cut(s)	860, 954, 981
MslI	CAYNNNNRTG	2 cut(s)	138, 682
Msp20I	TGGCCA	1 cut(s)	186
MspA1I	CMGCKG	2 cut(s)	53, 545
MspI	CCGG	1 cut(s)	1090
MwoI	GCNNNNNNNGC	2 cut(s)	303, 527
NdeI	CATATG	1 cut(s)	730
NdeII	GATC	5 cut(s)	148, 217, 619, 775, 931
NlaIII	CATG	7 cut(s)	137, 296, 344, 681, 764, 1044, 1076
NlaIV	GGNNCC	3 cut(s)	454, 584, 630
NmuCI	GTSAC	5 cut(s)	62, 272, 391, 809, 920
NspI	RCATGY	1 cut(s)	681
PaqCI	CACCTGC	1 cut(s)	824
PciSI	GCTCTTC	1 cut(s)	81
PcsI	WCGNNNNNNNCGW	1 cut(s)	707
PfeI	GAWTC	4 cut(s)	427, 464, 484, 1079
PinAI	ACCGGT	1 cut(s)	1089
PkrI	GCNGC	5 cut(s)	22, 523, 544, 587, 690
PleI	GAGTC	1 cut(s)	233
PpsI	GAGTC	1 cut(s)	233
PspFI	CCCAGC	2 cut(s)	267, 885
PspN4I	GGNNCC	3 cut(s)	454, 584, 630
PspPI	GGNCC	1 cut(s)	583
PstNI	CAGNNNCTG	1 cut(s)	545
PvuII	CAGCTG	1 cut(s)	545
RsaI	GTAC	3 cut(s)	411, 786, 1054
RsaNI	GTAC	3 cut(s)	410, 785, 1053
RseI	CAYNNNNRTG	2 cut(s)	138, 682
SapI	GCTCTTC	1 cut(s)	81
SaqAI	TTAA	3 cut(s)	860, 954, 981
SatI	GCNGC	5 cut(s)	21, 522, 543, 586, 689
Sau3AI	GATC	5 cut(s)	148, 217, 619, 775, 931
Sau96I	GGNCC	1 cut(s)	583
SchI	GAGTC	1 cut(s)	233
SduI	GDGCHC	1 cut(s)	477
SfaNI	GCATC	1 cut(s)	130
SfcI	CTRYAG	1 cut(s)	256
SmiMI	CAYNNNNRTG	2 cut(s)	138, 682
SmlI	CTYRAG	1 cut(s)	805
SmoI	CTYRAG	1 cut(s)	805
Sse9I	AATT	7 cut(s)	27, 298, 595, 719, 815, 925, 956
SsiI	CCGC	4 cut(s)	51, 424, 586, 688
SspMI	CTAG	2 cut(s)	303, 797
TaaI	ACNGT	1 cut(s)	938
TaiI	ACGT	1 cut(s)	247
TasI	AATT	7 cut(s)	27, 298, 595, 719, 815, 925, 956
TauI	GCSGC	2 cut(s)	588, 691
TfiI	GAWTC	4 cut(s)	427, 464, 484, 1079
Tru1I	TTAA	3 cut(s)	860, 954, 981
Tru9I	TTAA	3 cut(s)	860, 954, 981
TscAI	CASTG	2 cut(s)	396, 941
TseFI	GTSAC	5 cut(s)	62, 272, 391, 809, 920
TseI	GCWGC	3 cut(s)	20, 521, 542
Tsp45I	GTSAC	5 cut(s)	62, 272, 391, 809, 920
TspDTI	ATGAA	1 cut(s)	1029
TspRI	CASTG	2 cut(s)	396, 941
XapI	RAATTY	2 cut(s)	815, 956
XceI	RCATGY	1 cut(s)	681
XspI	CTAG	2 cut(s)	303, 797

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