Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4C

Orthogroup ID

OG0010599

Physical Location & Seq

Genomic Coordinates Reverse (-)

20157701 .. 20167608

Gene Structure 9908 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4CG108000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1173 bp

ATGCCAGACGTGGATGATCCGATCAATGTGCTCAAATCCAAATTTACTAAAAAAGGACTGGCTGAGAAAGAGCTCGTACTGCTTACAGCTACTAATTCAAAACACACCAACATAATGCTTAGACCCAAAGCCCCTTCACATCTTATTCCCCGCCAAATCCCTTTTGAAAATCTCAATCCCCATACCTCAAACCAGTTCCTATCTCTCTCGGGAAAGCTCATATACCTCTTGAAACAATGCGTCTCCACCAAAGAGCTGAGACAAATCCACACCCAAATGCTCATAAACTCCATACACAAACCCAACTTCCTCCTCCCCAAAATCATAGACCTCAAAGACTTCACCTACGCCTACACCCTCTTCTCCCACATCCCCGAACCCAATGGCTACGCTTTCAACGTCATGCTCCGTGGCCTAACCACCACTTGGCAAAAGTACCCACTTACTCTTCAACTCTATTACCGAATGAAGTCTCTGGGTGTGATGCCGGATAATTTCACCTACCCATTTCTCTTCATCGCGTGTTGGAATCTCTCGGAGCTCAATCATGGCCGTGCAGCACATTCGTCTGTGTTGAAGACTGGGTTGGACGGTGATGGTCATGTGTGTCACTCTCTGATCACAATGTACTCGATGTGTGGGGAGCTGGGTTATGCACGGAAGGTGTTCGATGAAATTCCCCAGAGAGATTTGGTGTCGTGGAACTCGATGATTTCTGGGTATACGAAGATGGGGCGTGCAGGGGATGCGGTGGGGTTGTTTGGGGAGATGAGGGAGGCTGGATTTGAGCCGAATGAGATGACTCTGGTGAGTGTTCTCGGGGCGTGCGGGGACCTTGGGGATTTGAGCTTGGGGAGATGGGTGGAGGATTTTGTTGTTGATAAAAAGTTGCAGCTGAATTCTTATTTGGGGTCTGCGTTGATTGGTATGTATGGAAAGTGTGGTGATTTGTGTTCGGCAAGGAGGGTGTTTGACAGTATGAAGAAAAAGGATCACGTCACTTGGAATGCCATGATTACTGGGTATGTAACTTTTTACTTCACTCTTGGCTTGATGTTATGGTTCATGTTACAAATCAAGTATCTTAATAAGCTTGATCGAGATGTTAACATAGAATATGGTAGCATGGATACAATACCTGACCTTGACTTACTTCCATCGAGAAGAAAATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009987 GO:0016070 GO:0016787 GO:0016788 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044424 GO:0044464 GO:0046483 GO:0071704 GO:0090304 GO:0090305 GO:0097159 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PPR PPR_2

Protein Analysis

390

Amino Acids

44.33

Weight (kDa)

8.77

Isoelectric Point (pI)

33.78

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	230 - 276	7.1e-11	PPR repeat family
PPR	PF01535	232 - 262	3.2e-09	PPR repeat

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

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Orthologous Genes (Group: OG0010599)

Species	Orthologous Gene IDs
malus_domestica	MD00G1010100.v1.1 MD00G1186800.v1.1 MD03G1030200.v1.1 MD07G1304900.v1.1
rosa_chinensis	RchiOBHm_Chr1g0383741 RchiOBHm_Chr4g0439821 RchiOBHm_Chr7g0203551
rosa_laevigata	RLG00000019369
rosa_multiflora	Rmu_co8232911.1_g000001 Rmu_sc0003151.1_g000002 Rmu_sc0010226.1_g000002 Rmu_sc0010675.1_g000007 Rmu_sc0010675.1_g000009 Rmu_ssc0000029.1_g000003
rosa_roxburghii	Rroxscaffold_3G00253700
rosa_rugosa	Rorug07G0205800
rosa_samantha	Rh1CG438200 Rh4CG108000 Rh4DG093100 Rh7AG206500 Rh7CG219000

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	426
AccI	GTMKAC	1 cut(s)	722
AccII	CGCG	1 cut(s)	521
AciI	CCGC	3 cut(s)	151, 749, 828
AclWI	GGATC	2 cut(s)	11, 999
AcoI	YGGCCR	1 cut(s)	550
AcsI	RAATTY	3 cut(s)	41, 675, 898
AfaI	GTAC	3 cut(s)	78, 437, 629
AfiI	CCNNNNNNNGG	1 cut(s)	426
AgsI	TTSAA	6 cut(s)	99, 167, 232, 397, 452, 577
AjiI	CACGTC	2 cut(s)	10, 997
AjuI	GAANNNNNNNTTGG	4 cut(s)	569, 601, 890, 922
AluBI	AGCT	9 cut(s)	73, 89, 217, 256, 541, 646, 849, 895, 1093
AluI	AGCT	9 cut(s)	73, 89, 217, 256, 541, 646, 849, 895, 1093
Alw21I	GWGCWC	3 cut(s)	33, 75, 543
Alw26I	GTCTC	3 cut(s)	247, 253, 477
AlwI	GGATC	2 cut(s)	11, 999
Ama87I	CYCGRG	2 cut(s)	208, 818
AoxI	GGCC	2 cut(s)	412, 550
ApeKI	GCWGC	2 cut(s)	557, 892
ApoI	RAATTY	3 cut(s)	41, 675, 898
Asp700I	GAANNNNTTC	1 cut(s)	665
AspS9I	GGNCC	1 cut(s)	832
AsuHPI	GGTGA	5 cut(s)	334, 490, 605, 820, 956
AvaI	CYCGRG	2 cut(s)	208, 818
AvaII	GGWCC	1 cut(s)	832
BanII	GRGCYC	2 cut(s)	75, 543
BbsI	GAAGAC	1 cut(s)	584
Bbv12I	GWGCWC	3 cut(s)	33, 75, 543
BbvI	GCAGC	2 cut(s)	569, 904
BccI	CCATC	4 cut(s)	590, 724, 852, 1165
BceAI	ACGGC	1 cut(s)	537
BcgI	CGANNNNNNTGC	4 cut(s)	10, 44, 546, 580
BciVI	GTATCC	1 cut(s)	1123
BclI	TGATCA	1 cut(s)	618
BcoDI	GTCTC	3 cut(s)	247, 253, 477
BfuI	GTATCC	1 cut(s)	1123
BisI	GCNGC	2 cut(s)	558, 893
BlsI	GCNGC	2 cut(s)	559, 894
Bme18I	GGWCC	1 cut(s)	832
BmeT110I	CYCGRG	2 cut(s)	208, 818
BmgBI	CACGTC	2 cut(s)	10, 997
BmgT120I	GGNCC	1 cut(s)	832
BmiI	GGNNCC	1 cut(s)	833
BmrI	ACTGGG	2 cut(s)	591, 1029
BmsI	GCATC	2 cut(s)	474, 736
BmuI	ACTGGG	2 cut(s)	591, 1029
BpiI	GAAGAC	1 cut(s)	584
BsaJI	CCNNGG	2 cut(s)	409, 835
Bsc4I	CCNNNNNNNGG	1 cut(s)	426
Bse1I	ACTGG	4 cut(s)	63, 193, 586, 1024
BseDI	CCNNGG	2 cut(s)	409, 835
BseGI	GGATG	3 cut(s)	19, 369, 751
BseLI	CCNNNNNNNGG	1 cut(s)	426
BseMII	CTCAG	2 cut(s)	54, 248
BseNI	ACTGG	4 cut(s)	63, 193, 586, 1024
BseRI	GAGGAG	1 cut(s)	302
BseXI	GCAGC	2 cut(s)	569, 904
BseYI	CCCAGC	1 cut(s)	646
BsgI	GTGCAG	2 cut(s)	576, 759
Bsh1236I	CGCG	1 cut(s)	521
BshFI	GGCC	2 cut(s)	414, 552
BsiHKAI	GWGCWC	3 cut(s)	33, 75, 543
BsiHKCI	CYCGRG	2 cut(s)	208, 818
BsiSI	CCGG	1 cut(s)	488
BslFI	GGGAC	1 cut(s)	845
BslI	CCNNNNNNNGG	1 cut(s)	426
BsmAI	GTCTC	3 cut(s)	247, 253, 477
BsmBI	CGTCTC	1 cut(s)	247
BsmFI	GGGAC	1 cut(s)	845
BsmI	GAATGC	1 cut(s)	1012
BsnI	GGCC	2 cut(s)	414, 552
BsoBI	CYCGRG	2 cut(s)	208, 818
Bsp1286I	GDGCHC	3 cut(s)	33, 75, 543
Bsp143I	GATC	5 cut(s)	16, 21, 618, 991, 1096
BspACI	CCGC	3 cut(s)	151, 749, 828
BspANI	GGCC	2 cut(s)	414, 552
BspCNI	CTCAG	2 cut(s)	55, 249
BspFNI	CGCG	1 cut(s)	521
BspLI	GGNNCC	1 cut(s)	833
BspPI	GGATC	2 cut(s)	11, 999
BsrI	ACTGG	4 cut(s)	63, 193, 586, 1024
BssECI	CCNNGG	2 cut(s)	409, 835
BssMI	GATC	5 cut(s)	16, 21, 618, 991, 1096
BssNAI	GTATAC	1 cut(s)	723
BssT1I	CCWWGG	1 cut(s)	835
Bst1107I	GTATAC	1 cut(s)	723
Bst4CI	ACNGT	2 cut(s)	593, 977
Bst6I	CTCTTC	3 cut(s)	365, 453, 518
BstAPI	GCANNNNNTGC	1 cut(s)	746
BstC8I	GCNNGC	2 cut(s)	738, 826
BstDEI	CTNAG	3 cut(s)	63, 119, 257
BstDSI	CCRYGG	1 cut(s)	409
BstF5I	GGATG	3 cut(s)	19, 369, 751
BstFNI	CGCG	1 cut(s)	521
BstKTI	GATC	5 cut(s)	19, 24, 621, 994, 1099
BstMAI	GTCTC	3 cut(s)	247, 253, 477
BstMBI	GATC	5 cut(s)	16, 21, 618, 991, 1096
BstMWI	GCNNNNNNNGC	2 cut(s)	79, 746
BstUI	CGCG	1 cut(s)	521
BstV1I	GCAGC	2 cut(s)	569, 904
BstV2I	GAAGAC	1 cut(s)	584
BstZ17I	GTATAC	1 cut(s)	723
BsuI	GTATCC	1 cut(s)	1123
BsuRI	GGCC	2 cut(s)	414, 552
BtgI	CCRYGG	1 cut(s)	409
BtgZI	GCGATG	1 cut(s)	502
BtrI	CACGTC	2 cut(s)	10, 997
BtsCI	GGATG	3 cut(s)	19, 369, 751
Cac8I	GCNNGC	2 cut(s)	738, 826
Cfr13I	GGNCC	1 cut(s)	832
CseI	GACGC	1 cut(s)	229
Csp6I	GTAC	3 cut(s)	77, 436, 628
CviAII	CATG	6 cut(s)	403, 548, 602, 1012, 1066, 1126
CviQI	GTAC	3 cut(s)	77, 436, 628
DdeI	CTNAG	3 cut(s)	63, 119, 257
DpnI	GATC	5 cut(s)	18, 23, 620, 993, 1098
DpnII	GATC	5 cut(s)	16, 21, 618, 991, 1096
EaeI	YGGCCR	1 cut(s)	550
Eam1104I	CTCTTC	3 cut(s)	365, 453, 518
EarI	CTCTTC	3 cut(s)	365, 453, 518
Ecl136II	GAGCTC	2 cut(s)	73, 541
Eco130I	CCWWGG	1 cut(s)	835
Eco24I	GRGCYC	2 cut(s)	75, 543
Eco47I	GGWCC	1 cut(s)	832
Eco53kI	GAGCTC	2 cut(s)	73, 541
Eco88I	CYCGRG	2 cut(s)	208, 818
EcoICRI	GAGCTC	2 cut(s)	73, 541
EcoO109I	RGGNCCY	1 cut(s)	832
EcoRI	GAATTC	1 cut(s)	898
EcoT14I	CCWWGG	1 cut(s)	835
EcoT38I	GRGCYC	2 cut(s)	75, 543
ErhI	CCWWGG	1 cut(s)	835
Esp3I	CGTCTC	1 cut(s)	247
FaeI	CATG	6 cut(s)	406, 551, 605, 1015, 1069, 1129
FaqI	GGGAC	1 cut(s)	845
FatI	CATG	6 cut(s)	402, 547, 601, 1011, 1065, 1125
FauI	CCCGC	2 cut(s)	158, 821
FbaI	TGATCA	1 cut(s)	618
FblI	GTMKAC	1 cut(s)	722
Fnu4HI	GCNGC	2 cut(s)	558, 893
FokI	GGATG	3 cut(s)	26, 356, 758
FriOI	GRGCYC	2 cut(s)	75, 543
Fsp4HI	GCNGC	2 cut(s)	558, 893
GluI	GCNGC	2 cut(s)	558, 893
GsaI	CCCAGC	1 cut(s)	650
HaeIII	GGCC	2 cut(s)	414, 552
HapII	CCGG	1 cut(s)	488
HgaI	GACGC	1 cut(s)	229
Hin1II	CATG	6 cut(s)	406, 551, 605, 1015, 1069, 1129
HincII	GTYRAC	1 cut(s)	1108
HindII	GTYRAC	1 cut(s)	1108
HindIII	AAGCTT	1 cut(s)	1091
HinfI	GANTC	2 cut(s)	529, 802
HpaI	GTTAAC	1 cut(s)	1108
HpaII	CCGG	1 cut(s)	488
HphI	GGTGA	5 cut(s)	334, 490, 605, 820, 956
Hpy166II	GTNNAC	2 cut(s)	723, 1108
Hpy188I	TCNGA	3 cut(s)	21, 538, 618
Hpy188III	TCNNGA	4 cut(s)	210, 229, 1100, 1161
Hpy8I	GTNNAC	2 cut(s)	723, 1108
HpyAV	CCTTC	2 cut(s)	144, 655
HpyCH4III	ACNGT	2 cut(s)	593, 977
HpyCH4IV	ACGT	3 cut(s)	9, 399, 996
HpyCH4V	TGCA	4 cut(s)	557, 656, 740, 892
HpyF10VI	GCNNNNNNNGC	2 cut(s)	79, 746
HpyF3I	CTNAG	3 cut(s)	63, 119, 257
HpySE526I	ACGT	3 cut(s)	9, 399, 996
Hsp92II	CATG	6 cut(s)	406, 551, 605, 1015, 1069, 1129
Ksp22I	TGATCA	1 cut(s)	618
KspAI	GTTAAC	1 cut(s)	1108
Kzo9I	GATC	5 cut(s)	16, 21, 618, 991, 1096
LmnI	GCTCC	3 cut(s)	411, 538, 643
Lsp1109I	GCAGC	2 cut(s)	569, 904
LweI	GCATC	2 cut(s)	474, 736
MaeII	ACGT	3 cut(s)	9, 399, 996
MaeIII	GTNAC	4 cut(s)	608, 997, 1027, 1068
MalI	GATC	5 cut(s)	18, 23, 620, 993, 1098
MboI	GATC	5 cut(s)	16, 21, 618, 991, 1096
MboII	GAAGA	6 cut(s)	352, 440, 505, 589, 739, 994
MhlI	GDGCHC	3 cut(s)	33, 75, 543
MluCI	AATT	5 cut(s)	41, 94, 493, 675, 898
MlyI	GAGTC	1 cut(s)	796
MmeI	TCCRAC	2 cut(s)	506, 567
MroXI	GAANNNNTTC	1 cut(s)	665
MseI	TTAA	2 cut(s)	1086, 1107
MslI	CAYNNNNRTG	2 cut(s)	275, 552
MspA1I	CMGCKG	1 cut(s)	895
MspI	CCGG	1 cut(s)	488
Mva1269I	GAATGC	1 cut(s)	1012
MvnI	CGCG	1 cut(s)	521
MwoI	GCNNNNNNNGC	2 cut(s)	79, 746
NdeII	GATC	5 cut(s)	16, 21, 618, 991, 1096
NlaIII	CATG	6 cut(s)	406, 551, 605, 1015, 1069, 1129
NlaIV	GGNNCC	1 cut(s)	833
NmuCI	GTSAC	2 cut(s)	608, 997
PcsI	WCGNNNNNNNCGW	2 cut(s)	396, 704
PctI	GAATGC	1 cut(s)	1012
PdmI	GAANNNNTTC	1 cut(s)	665
PfeI	GAWTC	1 cut(s)	529
PflMI	CCANNNNNTGG	1 cut(s)	426
PkrI	GCNGC	2 cut(s)	559, 894
PleI	GAGTC	1 cut(s)	796
PpsI	GAGTC	1 cut(s)	796
PpuMI	RGGWCCY	1 cut(s)	832
Psp124BI	GAGCTC	2 cut(s)	75, 543
Psp5II	RGGWCCY	1 cut(s)	832
PspFI	CCCAGC	1 cut(s)	646
PspN4I	GGNNCC	1 cut(s)	833
PspPI	GGNCC	1 cut(s)	832
PspPPI	RGGWCCY	1 cut(s)	832
PvuII	CAGCTG	1 cut(s)	895
RsaI	GTAC	3 cut(s)	78, 437, 629
RsaNI	GTAC	3 cut(s)	77, 436, 628
RseI	CAYNNNNRTG	2 cut(s)	275, 552
SacI	GAGCTC	2 cut(s)	75, 543
SaqAI	TTAA	2 cut(s)	1086, 1107
SatI	GCNGC	2 cut(s)	558, 893
Sau3AI	GATC	5 cut(s)	16, 21, 618, 991, 1096
Sau96I	GGNCC	1 cut(s)	832
SchI	GAGTC	1 cut(s)	796
SduI	GDGCHC	3 cut(s)	33, 75, 543
SfaNI	GCATC	2 cut(s)	474, 736
SinI	GGWCC	1 cut(s)	832
SmiMI	CAYNNNNRTG	2 cut(s)	275, 552
Sse9I	AATT	5 cut(s)	41, 94, 493, 675, 898
SsiI	CCGC	3 cut(s)	151, 749, 828
SstI	GAGCTC	2 cut(s)	75, 543
StyI	CCWWGG	1 cut(s)	835
TaaI	ACNGT	2 cut(s)	593, 977
TaiI	ACGT	3 cut(s)	12, 402, 999
TaqI	TCGA	5 cut(s)	632, 669, 707, 1099, 1160
TasI	AATT	5 cut(s)	41, 94, 493, 675, 898
TatI	WGTACW	1 cut(s)	627
TfiI	GAWTC	1 cut(s)	529
Tru1I	TTAA	2 cut(s)	1086, 1107
Tru9I	TTAA	2 cut(s)	1086, 1107
TseFI	GTSAC	2 cut(s)	608, 997
TseI	GCWGC	2 cut(s)	557, 892
Tsp45I	GTSAC	2 cut(s)	608, 997
TspDTI	ATGAA	5 cut(s)	482, 505, 687, 995, 1054
TspGWI	ACGGA	2 cut(s)	398, 673
Van91I	CCANNNNNTGG	1 cut(s)	426
VpaK11BI	GGWCC	1 cut(s)	832
XapI	RAATTY	3 cut(s)	41, 675, 898
XmiI	GTMKAC	1 cut(s)	722
XmnI	GAANNNNTTC	1 cut(s)	665

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