Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6D

Orthogroup ID

OG0002460

Physical Location & Seq

Genomic Coordinates Reverse (-)

55197642 .. 55198787

Gene Structure 1146 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6DG352200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1146 bp

ATGCTCATGTTTTTGGAGTCTTGGAAGGAGCTACTGCCCACTTCTGTTGTTCATGACATATTGGATATGGTGGTCTTGCCTGAATTGAAGGTTGCAATACAGTTGTGGGAACCAAACTTGGGAACTGTTCCTATCCATTTGTGGGTGCATCCATGGCTACCGTTACTGTTTGAATTGGGAGACAAGTATCAATTGGAGCTGGAGGAGTTGTTTGGAACAATGAGGTTGAAGTTGTGTGATTTTCTTAGCTCATGGCACCCGAGAGATGGGTCTGGTTATACCATAGTGTCACCGTGGAAAGCGGTGTTTGATTCTACCACTTGGGAACTGCTTATGCGTAGATATGTAGTTCCCAAGTTGGAGCTTGTGCTACTAGAAGATTTTGAAGTGAACCCTTTAAATCAGAAGCTTGATCAGTTTAATTGGGTCATGAGGTGGGCTTCTGCTATTCCTATGCATTTGATGGTCAATGTGATGGTCAAGGGCTTCTTCCCGAATTGGATAAAGGGTTTGCATTTCTGGTTGAAAGCCAATCCGAACTTTGAAGATGTTGCGGATTGGTATAGGGGTTGGAAGGAACTTATCCCCAAAGAGTTTCATGCGAATGAAAGTATTCGTTGTCAGCTTGAGCGTGGTCTTAGTATGATGAACCGGGCTGTTGAGGATATGGAGGCTGCTCAAGCTGATTTGAAAGAGAATTTTAGGGTAGTTGAAAAAAGACAGGGGAAAGCAGTACCAGCAGCCCAAGCAAACTTCGGCGGCCAAACCAACATGGATGGCATTGATCATGAGATGAATTTGAAAGAGAATGGTAAGATTGATCAAGTGCAATTTGAGGCAAAGAAGAGAGCAGCAGCTTTTCTAGCCAATGCGAAATTGGGCAGCACAACTGACGTGGATGACATTAGTCATCAAATGACCCTGAAAGATGTTATTGAAGCTGAGGCGCAGGAACATGGCTTGCTATTTAGGCCTAAACCTGGGCGAATGTTTGATGGTCACCAGGTATACGGCTTTGGTAACATAAGCATAATGGTGGACTTTCTAAAGGAGAAGATATATGCCCAAACAGAAGCGACGTGGTCTCTTGTGTCCCTTGAGAGGTTACTTGAGTTACACAAGAACAAGGAGACGATGAGTTTCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000228 GO:0000375 GO:0000377 GO:0000390 GO:0000398 GO:0000781 GO:0000784 GO:0003674 GO:0005488 GO:0005575 GO:0005576 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005681 GO:0005684 GO:0005694 GO:0005730 GO:0005737 GO:0006139 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0008380 GO:0009987 GO:0010467 GO:0016043 GO:0016070 GO:0016071 GO:0016604 GO:0016607 GO:0022411 GO:0030154 GO:0030198 GO:0031012 GO:0031333 GO:0031974 GO:0031981 GO:0032091 GO:0032502 GO:0032984 GO:0032988 GO:0032991 GO:0034641 GO:0042752 GO:0043021 GO:0043062 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043254 GO:0043393 GO:0043933 GO:0044087 GO:0044092 GO:0044237 GO:0044238 GO:0044421 GO:0044422 GO:0044424 GO:0044427 GO:0044428 GO:0044446 GO:0044451 GO:0044454 GO:0044464 GO:0044877 GO:0046483 GO:0048519 GO:0048523 GO:0048869 GO:0050789 GO:0050794 GO:0051098 GO:0051100 GO:0051128 GO:0051129 GO:0065007 GO:0065009 GO:0070013 GO:0070990 GO:0071008 GO:0071013 GO:0071014 GO:0071704 GO:0071826 GO:0071840 GO:0090304 GO:0098687 GO:1901360 GO:1902494 GO:1990446 GO:1990904

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

G-patch GCFC TIP_N

Protein Analysis

381

Amino Acids

44.18

Weight (kDa)

5.53

Isoelectric Point (pI)

21.79

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
GCFC	PF07842	1 - 169	2.2e-44	GC-rich sequence DNA-binding factor-like protein

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: OG0002460)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G17070
fragaria_vesca	FvH4_2g25582 FvH4_5g27320
malus_domestica	MD08G1250100.v1.1 MD15G1445100.v1.1
prunus_persica	Prupe.1G587200_v2.0.a1 Prupe.5G048700_v2.0.a1
pyrus_communis	pycom08g21680 pycom15g39220
rosa_chinensis	RchiOBHm_Chr6g0293801 RchiOBHm_Chr6g0293811 RchiOBHm_Chr7g0218481
rosa_laevigata	RLG00000002370 RLG00000011921 RLG00000012034
rosa_multiflora	Rmu_co8485319.1_g000001 Rmu_sc0001301.1_g000062 Rmu_sc0001301.1_g000063 Rmu_sc0001354.1_g000013 Rmu_sc0023058.1_g000001
rosa_roxburghii	Rroxscaffold_3G00240910 Rroxscaffold_7G00173890 Rroxscaffold_7G00175120
rosa_rugosa	Rorug06G0238200 Rorug07G0177400
rosa_samantha	Rh6AG339400 Rh6AG351600 Rh6BG346700 Rh6BG358400 Rh6CG353500 Rh6CG365600 Rh6DG339500 Rh6DG352200 Rh6DG352300 Rh7AG318900 Rh7BG310800 Rh7CG335800 Rh7DG318000
rosa_wichuraiana	Rw6G029540 Rw6G030580 Rw7G027140

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	255
AccI	GTMKAC	1 cut(s)	1008
AciI	CCGC	3 cut(s)	302, 554, 759
AcoI	YGGCCR	1 cut(s)	760
AcsI	RAATTY	2 cut(s)	697, 796
AfaI	GTAC	1 cut(s)	735
AfiI	CCNNNNNNNGG	5 cut(s)	119, 142, 266, 980, 1101
AjiI	CACGTC	2 cut(s)	895, 1080
AjnI	CCWGG	2 cut(s)	979, 1002
AluBI	AGCT	9 cut(s)	31, 199, 249, 364, 409, 625, 683, 857, 941
AluI	AGCT	9 cut(s)	31, 199, 249, 364, 409, 625, 683, 857, 941
Alw26I	GTCTC	3 cut(s)	174, 1089, 1124
Ama87I	CYCGRG	1 cut(s)	259
AoxI	GGCC	2 cut(s)	760, 971
ApeKI	GCWGC	5 cut(s)	674, 740, 851, 854, 882
ApoI	RAATTY	2 cut(s)	697, 796
Asp700I	GAANNNNTTC	1 cut(s)	612
AspLEI	GCGC	1 cut(s)	949
AsuC2I	CCSGG	1 cut(s)	653
AsuHPI	GGTGA	2 cut(s)	282, 992
AvaI	CYCGRG	1 cut(s)	259
BanI	GGYRCC	1 cut(s)	255
BbvCI	CCTCAGC	1 cut(s)	942
BbvI	GCAGC	5 cut(s)	661, 752, 863, 866, 894
BccI	CCATC	5 cut(s)	260, 457, 469, 770, 989
BceAI	ACGGC	1 cut(s)	1027
BciT130I	CCWGG	2 cut(s)	981, 1004
BclI	TGATCA	3 cut(s)	412, 784, 820
BcnI	CCSGG	1 cut(s)	653
BcoDI	GTCTC	3 cut(s)	174, 1089, 1124
BfaI	CTAG	2 cut(s)	374, 863
BisI	GCNGC	6 cut(s)	675, 741, 760, 852, 855, 883
BlsI	GCNGC	6 cut(s)	676, 742, 761, 853, 856, 884
Bme1390I	CCNGG	3 cut(s)	653, 981, 1004
BmeT110I	CYCGRG	1 cut(s)	259
BmgBI	CACGTC	2 cut(s)	895, 1080
BmiI	GGNNCC	2 cut(s)	111, 257
BmrFI	CCNGG	3 cut(s)	653, 981, 1004
BmsI	GCATC	1 cut(s)	157
BoxI	GACNNNNGTC	1 cut(s)	906
BpmI	CTGGAG	1 cut(s)	221
Bpu10I	CCTNAGC	1 cut(s)	942
BpuEI	CTTGAG	4 cut(s)	647, 663, 1118, 1130
BpuMI	CCSGG	1 cut(s)	653
BsaI	GGTCTC	1 cut(s)	1089
BsaJI	CCNNGG	3 cut(s)	152, 293, 980
BsaXI	ACNNNNNCTCC	2 cut(s)	194, 224
Bsc4I	CCNNNNNNNGG	5 cut(s)	119, 142, 266, 980, 1101
BseBI	CCWGG	2 cut(s)	981, 1004
BseDI	CCNNGG	3 cut(s)	152, 293, 980
BseGI	GGATG	3 cut(s)	148, 781, 904
BseLI	CCNNNNNNNGG	5 cut(s)	119, 142, 266, 980, 1101
BseMII	CTCAG	1 cut(s)	933
BseRI	GAGGAG	1 cut(s)	218
BseXI	GCAGC	5 cut(s)	661, 752, 863, 866, 894
BshFI	GGCC	2 cut(s)	762, 973
BshNI	GGYRCC	1 cut(s)	255
BsiHKCI	CYCGRG	1 cut(s)	259
BsiSI	CCGG	1 cut(s)	652
BslFI	GGGAC	1 cut(s)	1078
BslI	CCNNNNNNNGG	5 cut(s)	119, 142, 266, 980, 1101
BsmAI	GTCTC	3 cut(s)	174, 1089, 1124
BsmBI	CGTCTC	1 cut(s)	1124
BsmFI	GGGAC	1 cut(s)	1078
BsnI	GGCC	2 cut(s)	762, 973
Bso31I	GGTCTC	1 cut(s)	1089
BsoBI	CYCGRG	1 cut(s)	259
Bsp143I	GATC	3 cut(s)	412, 784, 820
Bsp19I	CCATGG	1 cut(s)	152
BspACI	CCGC	3 cut(s)	302, 554, 759
BspANI	GGCC	2 cut(s)	762, 973
BspCNI	CTCAG	1 cut(s)	934
BspHI	TCATGA	3 cut(s)	52, 429, 787
BspLI	GGNNCC	2 cut(s)	111, 257
BspT107I	GGYRCC	1 cut(s)	255
BspTNI	GGTCTC	1 cut(s)	1089
BssECI	CCNNGG	3 cut(s)	152, 293, 980
BssMI	GATC	3 cut(s)	412, 784, 820
BssNAI	GTATAC	1 cut(s)	1009
BssT1I	CCWWGG	1 cut(s)	152
Bst1107I	GTATAC	1 cut(s)	1009
Bst2UI	CCWGG	2 cut(s)	981, 1004
Bst4CI	ACNGT	5 cut(s)	102, 127, 162, 168, 294
Bst6I	CTCTTC	1 cut(s)	839
BstC8I	GCNNGC	1 cut(s)	962
BstDEI	CTNAG	3 cut(s)	245, 638, 942
BstDSI	CCRYGG	2 cut(s)	152, 293
BstEII	GGTNACC	1 cut(s)	998
BstF5I	GGATG	3 cut(s)	148, 781, 904
BstHHI	GCGC	1 cut(s)	949
BstKTI	GATC	3 cut(s)	415, 787, 823
BstMAI	GTCTC	3 cut(s)	174, 1089, 1124
BstMBI	GATC	3 cut(s)	412, 784, 820
BstMWI	GCNNNNNNNGC	6 cut(s)	154, 680, 737, 746, 863, 970
BstNI	CCWGG	2 cut(s)	981, 1004
BstPAI	GACNNNNGTC	1 cut(s)	906
BstPI	GGTNACC	1 cut(s)	998
BstSCI	CCNGG	3 cut(s)	651, 979, 1002
BstV1I	GCAGC	5 cut(s)	661, 752, 863, 866, 894
BstZ17I	GTATAC	1 cut(s)	1009
BsuRI	GGCC	2 cut(s)	762, 973
BtgI	CCRYGG	2 cut(s)	152, 293
BtrI	CACGTC	2 cut(s)	895, 1080
BtsCI	GGATG	3 cut(s)	148, 781, 904
Cac8I	GCNNGC	1 cut(s)	962
CciI	TCATGA	3 cut(s)	52, 429, 787
CfoI	GCGC	1 cut(s)	949
CsiI	ACCWGGT	1 cut(s)	1002
Csp6I	GTAC	1 cut(s)	734
CspCI	CAANNNNNGTGG	4 cut(s)	28, 63, 876, 911
CviAII	CATG	9 cut(s)	7, 53, 153, 252, 430, 599, 772, 788, 956
CviQI	GTAC	1 cut(s)	734
DdeI	CTNAG	3 cut(s)	245, 638, 942
DpnI	GATC	3 cut(s)	414, 786, 822
DpnII	GATC	3 cut(s)	412, 784, 820
DraI	TTTAAA	1 cut(s)	399
EaeI	YGGCCR	1 cut(s)	760
Eam1104I	CTCTTC	1 cut(s)	839
EarI	CTCTTC	1 cut(s)	839
Eco130I	CCWWGG	1 cut(s)	152
Eco147I	AGGCCT	1 cut(s)	973
Eco31I	GGTCTC	1 cut(s)	1089
Eco88I	CYCGRG	1 cut(s)	259
Eco91I	GGTNACC	1 cut(s)	998
EcoO65I	GGTNACC	1 cut(s)	998
EcoRII	CCWGG	2 cut(s)	979, 1002
EcoT14I	CCWWGG	1 cut(s)	152
EcoT22I	ATGCAT	1 cut(s)	459
ErhI	CCWWGG	1 cut(s)	152
Esp3I	CGTCTC	1 cut(s)	1124
FaeI	CATG	9 cut(s)	10, 56, 156, 255, 433, 602, 775, 791, 959
FalI	AAGNNNNNCTT	2 cut(s)	473, 505
FaqI	GGGAC	1 cut(s)	1078
FatI	CATG	9 cut(s)	6, 52, 152, 251, 429, 598, 771, 787, 955
FbaI	TGATCA	3 cut(s)	412, 784, 820
FblI	GTMKAC	1 cut(s)	1008
Fnu4HI	GCNGC	6 cut(s)	675, 741, 760, 852, 855, 883
FokI	GGATG	3 cut(s)	135, 788, 911
Fsp4HI	GCNGC	6 cut(s)	675, 741, 760, 852, 855, 883
FspBI	CTAG	2 cut(s)	374, 863
GlaI	GCGC	1 cut(s)	948
GluI	GCNGC	6 cut(s)	675, 741, 760, 852, 855, 883
GsuI	CTGGAG	1 cut(s)	221
HaeIII	GGCC	2 cut(s)	762, 973
HapII	CCGG	1 cut(s)	652
HhaI	GCGC	1 cut(s)	949
Hin1II	CATG	9 cut(s)	10, 56, 156, 255, 433, 602, 775, 791, 959
Hin6I	GCGC	1 cut(s)	947
HinP1I	GCGC	1 cut(s)	947
HindIII	AAGCTT	1 cut(s)	407
HinfI	GANTC	2 cut(s)	17, 311
HpaII	CCGG	1 cut(s)	652
HphI	GGTGA	2 cut(s)	282, 992
Hpy166II	GTNNAC	3 cut(s)	391, 1009, 1039
Hpy188I	TCNGA	3 cut(s)	405, 537, 1145
Hpy188III	TCNNGA	4 cut(s)	53, 430, 493, 788
Hpy8I	GTNNAC	3 cut(s)	391, 1009, 1039
Hpy99I	CGWCG	1 cut(s)	1081
HpyAV	CCTTC	3 cut(s)	19, 82, 568
HpyCH4III	ACNGT	5 cut(s)	102, 127, 162, 168, 294
HpyCH4IV	ACGT	2 cut(s)	894, 1079
HpyCH4V	TGCA	5 cut(s)	95, 148, 457, 514, 829
HpyF10VI	GCNNNNNNNGC	6 cut(s)	154, 680, 737, 746, 863, 970
HpyF3I	CTNAG	3 cut(s)	245, 638, 942
HpySE526I	ACGT	2 cut(s)	894, 1079
Hsp92II	CATG	9 cut(s)	10, 56, 156, 255, 433, 602, 775, 791, 959
HspAI	GCGC	1 cut(s)	947
Ksp22I	TGATCA	3 cut(s)	412, 784, 820
Kzo9I	GATC	3 cut(s)	412, 784, 820
LmnI	GCTCC	3 cut(s)	28, 196, 361
Lsp1109I	GCAGC	5 cut(s)	661, 752, 863, 866, 894
LweI	GCATC	1 cut(s)	157
MabI	ACCWGGT	1 cut(s)	1002
MaeI	CTAG	2 cut(s)	374, 863
MaeII	ACGT	2 cut(s)	894, 1079
MaeIII	GTNAC	6 cut(s)	162, 288, 998, 1019, 1104, 1113
MalI	GATC	3 cut(s)	414, 786, 822
MboI	GATC	3 cut(s)	412, 784, 820
MboII	GAAGA	5 cut(s)	389, 481, 557, 856, 1066
MfeI	CAATTG	1 cut(s)	191
MluCI	AATT	9 cut(s)	83, 173, 191, 421, 496, 697, 796, 830, 875
MlyI	GAGTC	1 cut(s)	26
MmeI	TCCRAC	2 cut(s)	339, 551
MnlI	CCTC	8 cut(s)	196, 216, 426, 655, 664, 829, 937, 1095
Mph1103I	ATGCAT	1 cut(s)	459
MroXI	GAANNNNTTC	1 cut(s)	612
MseI	TTAA	2 cut(s)	398, 420
MslI	CAYNNNNRTG	2 cut(s)	603, 1034
MspI	CCGG	1 cut(s)	652
MspR9I	CCNGG	3 cut(s)	653, 981, 1004
MunI	CAATTG	1 cut(s)	191
MvaI	CCWGG	2 cut(s)	981, 1004
MwoI	GCNNNNNNNGC	6 cut(s)	154, 680, 737, 746, 863, 970
NciI	CCSGG	1 cut(s)	653
NcoI	CCATGG	1 cut(s)	152
NdeII	GATC	3 cut(s)	412, 784, 820
NlaIII	CATG	9 cut(s)	10, 56, 156, 255, 433, 602, 775, 791, 959
NlaIV	GGNNCC	2 cut(s)	111, 257
NmuCI	GTSAC	2 cut(s)	288, 998
NsiI	ATGCAT	1 cut(s)	459
PagI	TCATGA	3 cut(s)	52, 429, 787
PceI	AGGCCT	1 cut(s)	973
PdmI	GAANNNNTTC	1 cut(s)	612
PfeI	GAWTC	1 cut(s)	311
PflFI	GACNNNGTC	1 cut(s)	1081
PkrI	GCNGC	6 cut(s)	676, 742, 761, 853, 856, 884
PleI	GAGTC	1 cut(s)	25
PpsI	GAGTC	1 cut(s)	25
PshAI	GACNNNNGTC	1 cut(s)	906
Psp6I	CCWGG	2 cut(s)	979, 1002
PspEI	GGTNACC	1 cut(s)	998
PspGI	CCWGG	2 cut(s)	979, 1002
PspN4I	GGNNCC	2 cut(s)	111, 257
PsyI	GACNNNGTC	1 cut(s)	1081
RsaI	GTAC	1 cut(s)	735
RsaNI	GTAC	1 cut(s)	734
RseI	CAYNNNNRTG	2 cut(s)	603, 1034
SaqAI	TTAA	2 cut(s)	398, 420
SatI	GCNGC	6 cut(s)	675, 741, 760, 852, 855, 883
Sau3AI	GATC	3 cut(s)	412, 784, 820
SchI	GAGTC	1 cut(s)	26
ScrFI	CCNGG	3 cut(s)	653, 981, 1004
SexAI	ACCWGGT	1 cut(s)	1002
SfaNI	GCATC	1 cut(s)	157
SmiMI	CAYNNNNRTG	2 cut(s)	603, 1034
SmlI	CTYRAG	4 cut(s)	626, 678, 1097, 1109
SmoI	CTYRAG	4 cut(s)	626, 678, 1097, 1109
Sse9I	AATT	9 cut(s)	83, 173, 191, 421, 496, 697, 796, 830, 875
SseBI	AGGCCT	1 cut(s)	973
SsiI	CCGC	3 cut(s)	302, 554, 759
SspMI	CTAG	2 cut(s)	374, 863
StuI	AGGCCT	1 cut(s)	973
StyD4I	CCNGG	3 cut(s)	651, 979, 1002
StyI	CCWWGG	1 cut(s)	152
TaaI	ACNGT	5 cut(s)	102, 127, 162, 168, 294
TaiI	ACGT	2 cut(s)	897, 1082
TasI	AATT	9 cut(s)	83, 173, 191, 421, 496, 697, 796, 830, 875
TauI	GCSGC	1 cut(s)	762
TfiI	GAWTC	1 cut(s)	311
Tru1I	TTAA	2 cut(s)	398, 420
Tru9I	TTAA	2 cut(s)	398, 420
TseFI	GTSAC	2 cut(s)	288, 998
TseI	GCWGC	5 cut(s)	674, 740, 851, 854, 882
Tsp45I	GTSAC	2 cut(s)	288, 998
TspDTI	ATGAA	5 cut(s)	41, 587, 621, 662, 809
Tth111I	GACNNNGTC	1 cut(s)	1081
XapI	RAATTY	2 cut(s)	697, 796
XcmI	CCANNNNNNNNNTGG	1 cut(s)	874
XmiI	GTMKAC	1 cut(s)	1008
XmnI	GAANNNNTTC	1 cut(s)	612
XspI	CTAG	2 cut(s)	374, 863
Zsp2I	ATGCAT	1 cut(s)	459

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