Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6B

Orthogroup ID

OG0004842

Physical Location & Seq

Genomic Coordinates Reverse (-)

27721852 .. 27722955

Gene Structure 1104 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6BG168400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1104 bp

ATGTCCAACTATTTCTCTCTATATAGAACACATAGCTCTGATTTCATTACTCGTTATATACACCACATTTCTCAAACCAAGAATCAAAGCGCTGTTAAGAAACTCCATGCTCACCTTCTAACAACAGGGTTGCTTATCATATCCCCTCATTTTGACGCTAAACTCATCCTCTCATACACCAAATGCCTTCCCCAACACAACCTCCAGACACTGACCAACTTCTTCAAATGCATGAAACCCAAAAGCGAATTACCATTCAATGTGTTAATGGCTGACTTCTGCCGAAATGGGTTCAGTTTTCTTGCTCTGAAAACCTTATCATTCATGCACAGTAGCGGTGTTCCTATAGATACGTATGCTTTGTGTAGTTCTTTAACTGCTGCATCTTCTATTAAAGATGTTGGCTTCGGTAGAAAGATACATGCCCATGTGGTAAAGTCAGGCTGGTGCTCCAGTGTTTTTGTTGGGAGTGCTCTGATTGACTTGTATGCTAAGTCATTGGTTATAGGAGATGCAGACCAAGTGTTTGATGAAATGCCGCTGAGAAACACTGTTTGTGCAAACGCACTTTTATCAGGTTATGGTGATGCCAAGTTGTGGACAGAGGCAGTAGAATTGATCAGGAAGATGCCGGCACTGAGTTTGGAGTATGATCACTTCACATTGTCCGCGGCATTACGTGCCTGTGCTGGGCTAGCTGCAGTTGAACTGGGTAGGCAGGTACATGGTTATTTGATGCGTTCGGTTTATGATGTGGGAAGTGATATGTTTCTGCTGAGTTCATTGATTGAAATGTATGGTAAATGTGGGCTGGTAGCCAAGGCTCAGAAAGTTTTCAATTTTGATGGAAAAGGAGAGGGGAAAAGAGATGTGGTTATGTGGACTTCACTGCTTGGTGTGTGTGGTAGAAATGGATACTATAAAGAGGTACTTGAACTATTCAAAGATATGTTGATGGAAGGAATTAGCCCAGATGGGGTGGCATTTGTGACAGTCATCTCTGCTTGTACTCACACCAGTCAATTGCAGCTCGGCATGGAGTATTTTGAATCCATGGAACTCAAGTTCAGCTTGATCCAGGTCCAGAACACTACAGCTGTCTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PPR PPR_2

Protein Analysis

367

Amino Acids

40.65

Weight (kDa)

8.24

Isoelectric Point (pI)

34.62

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	289 - 337	1.3e-09	PPR repeat family
PPR	PF01535	292 - 322	2.5e-07	PPR repeat

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0004842)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_2g10791
rosa_chinensis	RchiOBHm_Chr6g0268571 RchiOBHm_Chr6g0268611 RchiOBHm_Chr6g0268691 RchiOBHm_Chr6g0268791 RchiOBHm_Chr6g0268801
rosa_laevigata	RLG00000013896 RLG00000013900
rosa_multiflora	Rmu_sc0000869.1_g000012 Rmu_sc0005121.1_g000006 Rmu_sc0005125.1_g000014 Rmu_sc0006115.1_g000001
rosa_roxburghii	Rroxscaffold_4G00312470 Rroxscaffold_7G00199160 Rroxscaffold_7G00199690
rosa_rugosa	Rorug06G0043200
rosa_samantha	Rh6AG162800 Rh6AG163800 Rh6BG166900 Rh6BG167800 Rh6BG168400 Rh6CG160900 Rh6CG161400 Rh6CG162000 Rh6CG162600 Rh6DG152200 Rh6DG152900 Rh6DG153600 Rh6DG154200
rosa_wichuraiana	Rw0G004740 Rw6G014050

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	709
AccB7I	CCANNNNNTGG	1 cut(s)	597
AccII	CGCG	1 cut(s)	671
AciI	CCGC	4 cut(s)	336, 539, 669, 671
AclWI	GGATC	1 cut(s)	1069
AfaI	GTAC	3 cut(s)	723, 930, 1009
AfeI	AGCGCT	1 cut(s)	91
AfiI	CCNNNNNNNGG	3 cut(s)	597, 690, 976
AgsI	TTSAA	8 cut(s)	226, 259, 707, 791, 838, 935, 943, 1049
AjnI	CCWGG	1 cut(s)	1077
AloI	GAACNNNNNNTCC	2 cut(s)	1049, 1081
AluBI	AGCT	5 cut(s)	36, 698, 1030, 1071, 1097
AluI	AGCT	5 cut(s)	36, 698, 1030, 1071, 1097
Alw21I	GWGCWC	2 cut(s)	452, 475
AlwI	GGATC	1 cut(s)	1069
AlwNI	CAGNNNCTG	1 cut(s)	211
Aor51HI	AGCGCT	1 cut(s)	91
ApeKI	GCWGC	3 cut(s)	380, 698, 1027
ArsI	GACNNNNNNTTYG	2 cut(s)	509, 541
Asp700I	GAANNNNTTC	1 cut(s)	833
AspLEI	GCGC	1 cut(s)	92
AspS9I	GGNCC	1 cut(s)	1081
AsuHPI	GGTGA	2 cut(s)	104, 596
AsuNHI	GCTAGC	1 cut(s)	694
AvaII	GGWCC	1 cut(s)	1081
BarI	GAAGNNNNNNTAC	2 cut(s)	641, 673
Bbv12I	GWGCWC	2 cut(s)	452, 475
BbvI	GCAGC	3 cut(s)	367, 685, 1039
BccI	CCATC	3 cut(s)	839, 949, 968
BciT130I	CCWGG	1 cut(s)	1079
BciVI	GTATCC	1 cut(s)	908
BclI	TGATCA	2 cut(s)	618, 652
BfaI	CTAG	2 cut(s)	695, 1102
BfmI	CTRYAG	3 cut(s)	345, 699, 1092
BfoI	RGCGCY	1 cut(s)	93
BfuAI	ACCTGC	1 cut(s)	709
BfuI	GTATCC	1 cut(s)	908
BisI	GCNGC	5 cut(s)	381, 539, 672, 699, 1028
BlsI	GCNGC	5 cut(s)	382, 540, 673, 700, 1029
Bme1390I	CCNGG	1 cut(s)	1079
Bme18I	GGWCC	1 cut(s)	1081
BmgT120I	GGNCC	1 cut(s)	1081
BmrFI	CCNGG	1 cut(s)	1079
BmrI	ACTGGG	1 cut(s)	719
BmsI	GCATC	5 cut(s)	392, 502, 577, 618, 726
BmtI	GCTAGC	1 cut(s)	698
BmuI	ACTGGG	1 cut(s)	719
BpmI	CTGGAG	2 cut(s)	188, 436
BpuEI	CTTGAG	1 cut(s)	1046
BsaAI	YACGTR	2 cut(s)	354, 680
BsaJI	CCNNGG	3 cut(s)	669, 819, 1053
BsaXI	ACNNNNNCTCC	2 cut(s)	186, 216
Bsc4I	CCNNNNNNNGG	3 cut(s)	597, 690, 976
Bse118I	RCCGGY	1 cut(s)	631
Bse1I	ACTGG	3 cut(s)	453, 714, 1017
BseBI	CCWGG	1 cut(s)	1079
BseDI	CCNNGG	3 cut(s)	669, 819, 1053
BseGI	GGATG	1 cut(s)	165
BseLI	CCNNNNNNNGG	3 cut(s)	597, 690, 976
BseMII	CTCAG	4 cut(s)	533, 629, 767, 839
BseNI	ACTGG	3 cut(s)	453, 714, 1017
BseXI	GCAGC	3 cut(s)	367, 685, 1039
BseYI	CCCAGC	1 cut(s)	689
Bsh1236I	CGCG	1 cut(s)	671
BsiHKAI	GWGCWC	2 cut(s)	452, 475
BsiSI	CCGG	1 cut(s)	632
BslI	CCNNNNNNNGG	3 cut(s)	597, 690, 976
Bsp1286I	GDGCHC	2 cut(s)	452, 475
Bsp143I	GATC	3 cut(s)	618, 652, 1074
Bsp19I	CCATGG	1 cut(s)	1053
BspACI	CCGC	4 cut(s)	336, 539, 669, 671
BspCNI	CTCAG	4 cut(s)	534, 630, 768, 838
BspFNI	CGCG	1 cut(s)	671
BspMAI	CTGCAG	1 cut(s)	703
BspMI	ACCTGC	1 cut(s)	709
BspOI	GCTAGC	1 cut(s)	698
BspPI	GGATC	1 cut(s)	1069
BsrFI	RCCGGY	1 cut(s)	631
BsrI	ACTGG	3 cut(s)	453, 714, 1017
BssAI	RCCGGY	1 cut(s)	631
BssECI	CCNNGG	3 cut(s)	669, 819, 1053
BssMI	GATC	3 cut(s)	618, 652, 1074
BssT1I	CCWWGG	2 cut(s)	819, 1053
Bst2UI	CCWGG	1 cut(s)	1079
Bst4CI	ACNGT	3 cut(s)	332, 553, 994
BstAPI	GCANNNNNTGC	1 cut(s)	680
BstBAI	YACGTR	2 cut(s)	354, 680
BstC8I	GCNNGC	2 cut(s)	633, 696
BstDEI	CTNAG	5 cut(s)	492, 542, 638, 776, 825
BstDSI	CCRYGG	2 cut(s)	669, 1053
BstF5I	GGATG	1 cut(s)	165
BstFNI	CGCG	1 cut(s)	671
BstH2I	RGCGCY	1 cut(s)	93
BstHHI	GCGC	1 cut(s)	92
BstKTI	GATC	3 cut(s)	621, 655, 1077
BstMBI	GATC	3 cut(s)	618, 652, 1074
BstMWI	GCNNNNNNNGC	2 cut(s)	680, 695
BstNI	CCWGG	1 cut(s)	1079
BstNSI	RCATGY	1 cut(s)	425
BstSCI	CCNGG	1 cut(s)	1077
BstSFI	CTRYAG	3 cut(s)	345, 699, 1092
BstSNI	TACGTA	1 cut(s)	354
BstUI	CGCG	1 cut(s)	671
BstV1I	GCAGC	3 cut(s)	367, 685, 1039
BsuI	GTATCC	1 cut(s)	908
BtgI	CCRYGG	2 cut(s)	669, 1053
BtsCI	GGATG	1 cut(s)	165
BtsI	GCAGTG	1 cut(s)	887
BtsIMutI	CAGTG	5 cut(s)	209, 460, 549, 635, 887
BveI	ACCTGC	1 cut(s)	709
Cac8I	GCNNGC	2 cut(s)	633, 696
CaiI	CAGNNNCTG	1 cut(s)	211
CfoI	GCGC	1 cut(s)	92
Cfr10I	RCCGGY	1 cut(s)	631
Cfr13I	GGNCC	1 cut(s)	1081
Cfr42I	CCGCGG	1 cut(s)	672
CseI	GACGC	1 cut(s)	164
Csp6I	GTAC	3 cut(s)	722, 929, 1008
CviAII	CATG	8 cut(s)	107, 232, 325, 422, 428, 725, 1036, 1054
CviQI	GTAC	3 cut(s)	722, 929, 1008
DdeI	CTNAG	5 cut(s)	492, 542, 638, 776, 825
DpnI	GATC	3 cut(s)	620, 654, 1076
DpnII	GATC	3 cut(s)	618, 652, 1074
Eco105I	TACGTA	1 cut(s)	354
Eco130I	CCWWGG	2 cut(s)	819, 1053
Eco47I	GGWCC	1 cut(s)	1081
Eco47III	AGCGCT	1 cut(s)	91
EcoRII	CCWGG	1 cut(s)	1077
EcoT14I	CCWWGG	2 cut(s)	819, 1053
EcoT22I	ATGCAT	1 cut(s)	233
ErhI	CCWWGG	2 cut(s)	819, 1053
FaeI	CATG	8 cut(s)	110, 235, 328, 425, 431, 728, 1039, 1057
FalI	AAGNNNNNCTT	4 cut(s)	915, 947, 1055, 1087
FatI	CATG	8 cut(s)	106, 231, 324, 421, 427, 724, 1035, 1053
FbaI	TGATCA	2 cut(s)	618, 652
Fnu4HI	GCNGC	5 cut(s)	381, 539, 672, 699, 1028
FokI	GGATG	1 cut(s)	152
Fsp4HI	GCNGC	5 cut(s)	381, 539, 672, 699, 1028
FspBI	CTAG	2 cut(s)	695, 1102
GlaI	GCGC	1 cut(s)	91
GluI	GCNGC	5 cut(s)	381, 539, 672, 699, 1028
GsaI	CCCAGC	1 cut(s)	693
GsuI	CTGGAG	2 cut(s)	188, 436
HaeII	RGCGCY	1 cut(s)	93
HapII	CCGG	1 cut(s)	632
HgaI	GACGC	1 cut(s)	164
HhaI	GCGC	1 cut(s)	92
Hin1II	CATG	8 cut(s)	110, 235, 328, 425, 431, 728, 1039, 1057
Hin6I	GCGC	1 cut(s)	90
HinP1I	GCGC	1 cut(s)	90
HinfI	GANTC	2 cut(s)	82, 1049
HpaII	CCGG	1 cut(s)	632
HphI	GGTGA	2 cut(s)	104, 596
Hpy166II	GTNNAC	2 cut(s)	600, 882
Hpy188I	TCNGA	4 cut(s)	40, 309, 477, 828
Hpy188III	TCNNGA	3 cut(s)	205, 622, 1084
Hpy8I	GTNNAC	2 cut(s)	600, 882
HpyAV	CCTTC	3 cut(s)	125, 197, 953
HpyCH4III	ACNGT	3 cut(s)	332, 553, 994
HpyCH4IV	ACGT	2 cut(s)	353, 679
HpyCH4V	TGCA	7 cut(s)	231, 328, 383, 515, 560, 701, 1027
HpyF10VI	GCNNNNNNNGC	2 cut(s)	680, 695
HpyF3I	CTNAG	5 cut(s)	492, 542, 638, 776, 825
HpySE526I	ACGT	2 cut(s)	353, 679
Hsp92II	CATG	8 cut(s)	110, 235, 328, 425, 431, 728, 1039, 1057
HspAI	GCGC	1 cut(s)	90
KroI	GCCGGC	1 cut(s)	631
KroNI	GCCGGC	1 cut(s)	633
Ksp22I	TGATCA	2 cut(s)	618, 652
KspI	CCGCGG	1 cut(s)	672
Kzo9I	GATC	3 cut(s)	618, 652, 1074
LmnI	GCTCC	1 cut(s)	455
Lsp1109I	GCAGC	3 cut(s)	367, 685, 1039
LweI	GCATC	5 cut(s)	392, 502, 577, 618, 726
MaeI	CTAG	2 cut(s)	695, 1102
MaeII	ACGT	2 cut(s)	353, 679
MaeIII	GTNAC	1 cut(s)	988
MalI	GATC	3 cut(s)	620, 654, 1076
MboI	GATC	3 cut(s)	618, 652, 1074
MboII	GAAGA	3 cut(s)	214, 378, 637
MfeI	CAATTG	1 cut(s)	1022
MhlI	GDGCHC	2 cut(s)	452, 475
MluCI	AATT	5 cut(s)	248, 614, 838, 963, 1022
MmeI	TCCRAC	1 cut(s)	30
MnlI	CCTC	6 cut(s)	156, 179, 212, 598, 850, 919
Mph1103I	ATGCAT	1 cut(s)	233
MroNI	GCCGGC	1 cut(s)	631
MroXI	GAANNNNTTC	1 cut(s)	833
MseI	TTAA	4 cut(s)	96, 266, 374, 393
MslI	CAYNNNNRTG	1 cut(s)	426
MspA1I	CMGCKG	3 cut(s)	541, 671, 1097
MspI	CCGG	1 cut(s)	632
MspR9I	CCNGG	1 cut(s)	1079
MunI	CAATTG	1 cut(s)	1022
MvaI	CCWGG	1 cut(s)	1079
MvnI	CGCG	1 cut(s)	671
MwoI	GCNNNNNNNGC	2 cut(s)	680, 695
NaeI	GCCGGC	1 cut(s)	633
NcoI	CCATGG	1 cut(s)	1053
NdeII	GATC	3 cut(s)	618, 652, 1074
NgoMIV	GCCGGC	1 cut(s)	631
NheI	GCTAGC	1 cut(s)	694
NlaIII	CATG	8 cut(s)	110, 235, 328, 425, 431, 728, 1039, 1057
NmeAIII	GCCGAG	1 cut(s)	1011
NmuCI	GTSAC	1 cut(s)	988
NsiI	ATGCAT	1 cut(s)	233
NspI	RCATGY	1 cut(s)	425
PdiI	GCCGGC	1 cut(s)	633
PdmI	GAANNNNTTC	1 cut(s)	833
PfeI	GAWTC	2 cut(s)	82, 1049
PflMI	CCANNNNNTGG	1 cut(s)	597
PkrI	GCNGC	5 cut(s)	382, 540, 673, 700, 1029
Ppu21I	YACGTR	2 cut(s)	354, 680
Psp6I	CCWGG	1 cut(s)	1077
PspFI	CCCAGC	1 cut(s)	689
PspGI	CCWGG	1 cut(s)	1077
PspPI	GGNCC	1 cut(s)	1081
PstI	CTGCAG	1 cut(s)	703
PstNI	CAGNNNCTG	1 cut(s)	211
PvuII	CAGCTG	1 cut(s)	1097
RsaI	GTAC	3 cut(s)	723, 930, 1009
RsaNI	GTAC	3 cut(s)	722, 929, 1008
RseI	CAYNNNNRTG	1 cut(s)	426
SacII	CCGCGG	1 cut(s)	672
SaqAI	TTAA	4 cut(s)	96, 266, 374, 393
SatI	GCNGC	5 cut(s)	381, 539, 672, 699, 1028
Sau3AI	GATC	3 cut(s)	618, 652, 1074
Sau96I	GGNCC	1 cut(s)	1081
ScrFI	CCNGG	1 cut(s)	1079
SduI	GDGCHC	2 cut(s)	452, 475
SfaNI	GCATC	5 cut(s)	392, 502, 577, 618, 726
SfcI	CTRYAG	3 cut(s)	345, 699, 1092
Sfr303I	CCGCGG	1 cut(s)	672
SgrBI	CCGCGG	1 cut(s)	672
SinI	GGWCC	1 cut(s)	1081
SmiMI	CAYNNNNRTG	1 cut(s)	426
SmlI	CTYRAG	1 cut(s)	1061
SmoI	CTYRAG	1 cut(s)	1061
SnaBI	TACGTA	1 cut(s)	354
Sse9I	AATT	5 cut(s)	248, 614, 838, 963, 1022
SsiI	CCGC	4 cut(s)	336, 539, 669, 671
SspMI	CTAG	2 cut(s)	695, 1102
StyD4I	CCNGG	1 cut(s)	1077
StyI	CCWWGG	2 cut(s)	819, 1053
TaaI	ACNGT	3 cut(s)	332, 553, 994
TaiI	ACGT	2 cut(s)	356, 682
TasI	AATT	5 cut(s)	248, 614, 838, 963, 1022
TatI	WGTACW	1 cut(s)	1007
TauI	GCSGC	2 cut(s)	541, 674
TfiI	GAWTC	2 cut(s)	82, 1049
Tru1I	TTAA	4 cut(s)	96, 266, 374, 393
Tru9I	TTAA	4 cut(s)	96, 266, 374, 393
TscAI	CASTG	5 cut(s)	216, 460, 556, 642, 894
TseFI	GTSAC	1 cut(s)	988
TseI	GCWGC	3 cut(s)	380, 698, 1027
Tsp45I	GTSAC	1 cut(s)	988
TspDTI	ATGAA	5 cut(s)	34, 248, 313, 546, 771
TspRI	CASTG	5 cut(s)	216, 460, 556, 642, 894
Van91I	CCANNNNNTGG	1 cut(s)	597
VpaK11BI	GGWCC	1 cut(s)	1081
XceI	RCATGY	1 cut(s)	425
XmnI	GAANNNNTTC	1 cut(s)	833
XspI	CTAG	2 cut(s)	695, 1102
Zsp2I	ATGCAT	1 cut(s)	233

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