Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1D

Orthogroup ID

OG0014361

Physical Location & Seq

Genomic Coordinates Reverse (-)

38284147 .. 38287857

Gene Structure 3711 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1DG192300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1248 bp

ATGATCAACAGAGCAGAGAGGTTTAGATTTTCCAGTAGTGATGCTGCAATTCAATTAGATCTAGTTGCTAAAGTTAGGGGAGTTTCTAGTGCGGAAAATTACTTCCTGAGTCTGCCAGATACTTTGAAGGACAGGAGAATATATGGGGCTCTGCTCAATGCCTACGTGCGGGCAAAAATGCAAGAAAAGGCAGAATCTTTGCTTGATAAAATGAGAAGTAAAGGTCATGCATTGCACTCGCTTCCATTTAATGTGATGATGACACTCTATATGAACCTCAAGGAGTATGAGAAAGTGGAATCCATTATTTCTGAAATGATGGAGAAAAACATTCAGCTAGATATATACTCGTACAATATCTGGTTATCATCTCGTGGATCTCAGGGATCTGCAGAACGAATGGAACAGGTATTTGAACAGATGAAGTTGGACAGAACCGTTAATCCCAACTGGACCACATTCAGCACAATGTCTACAATGTACATCAAGATGGGGCTGTTTGAAAAGGCTGAAGCTTGCCTGAAGAAGGTTGAGAGTAGAATCACAGGTCGGGATCGGATTCCTTACCATTATCTTTTAAGCCTTTATGGCAGTGTTGGTAACAAAGACGAAATTTATCGGGTATGGAATGTGTACAAATCAAGTTTTCCCAGTATTCCGAATTTGGGCTACCATGCTATTATCGCTTCTCTAATCAGAGTAGGTGATGTCGAAGGGGCAGAAAAGATGTTTGAGGAATGGCTGACTGTTAAGCCAACTTATGACCCTAGAATTGCCAATCTTTTCATTGTTTCTTACATAGAAGAAGGGGATTTTGATAAAGCCCAGAGTTTCTTTGACAACATGGTTGAAGCAGGAGGAAAACCTAATTCTAGTACATGGGAGGTCCTTGCTGAAGGGCATATAAAAGAGGAGAGAATTTCTGAGGCATTATCCTGCTGGAAAGAAGCTTTTTCTGCTGAGGGATCAAAGAGTTGGAGACCAAAGCCCATTAATGTGACTACCTTCCTTGAATTCTGTGAGCAAGAAGGCGATTTAAGAAGCAAAGAGGTTTTTTTGGGATTGTTGAGGCAGTCAGGACATCTAAAAAATAAGTCATATGCACTACTTCTTGGCTTATCTGATGAAGATTCTAGTGATAATGAGCTATCATTAGACAAAGATAGAACCAACGATAACCAGGACAGTGACGAGAAATCAGATGATGGGTCTGATATGCTTTTGAACCAATTGCAGAGTACCGTGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003729 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009507 GO:0009536 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:0044444 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 TPR_8

Protein Analysis

415

Amino Acids

47.47

Weight (kDa)

5.23

Isoelectric Point (pI)

43.06

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	83 - 122	4.8e-06	PPR repeat family
PPR_3	PF13812	101 - 161	8.4e-08	Pentatricopeptide repeat domain
PPR_2	PF13041	260 - 301	9.4e-06	PPR repeat family

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: OG0014361)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G02150
fragaria_vesca	FvH4_7g09350
malus_domestica	MD02G1219200.v1.1 MD07G1097800.v1.1
prunus_persica	Prupe.2G121900_v2.0.a1
pyrus_communis	pycom02g18110 pycom07g08050
rosa_chinensis	RchiOBHm_Chr1g0346001
rosa_laevigata	RLG00000028826
rosa_multiflora	Rmu_sc0008115.1_g000003
rosa_roxburghii	Rroxscaffold_4G00308950
rosa_samantha	Rh1AG196500 Rh1BG162000 Rh1CG181400 Rh1DG192300
rosa_wichuraiana	Rw1G016400 Rw1G016520

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	473
AciI	CCGC	2 cut(s)	92, 169
AclWI	GGATC	4 cut(s)	385, 394, 561, 973
AcsI	RAATTY	4 cut(s)	612, 661, 918, 1013
AcuI	CTGAAG	3 cut(s)	531, 542, 915
AfaI	GTAC	5 cut(s)	353, 482, 635, 877, 1240
AfiI	CCNNNNNNNGG	3 cut(s)	168, 526, 665
AgsI	TTSAA	7 cut(s)	53, 127, 416, 503, 851, 1013, 1225
AjnI	CCWGG	1 cut(s)	1179
AloI	GAACNNNNNNTCC	2 cut(s)	427, 459
AluBI	AGCT	4 cut(s)	337, 515, 950, 1147
AluI	AGCT	4 cut(s)	337, 515, 950, 1147
Alw26I	GTCTC	1 cut(s)	973
AlwI	GGATC	4 cut(s)	385, 394, 561, 973
ApeKI	GCWGC	1 cut(s)	44
ApoI	RAATTY	4 cut(s)	612, 661, 918, 1013
AseI	ATTAAT	1 cut(s)	993
AspS9I	GGNCC	2 cut(s)	453, 886
AsuHPI	GGTGA	1 cut(s)	716
AvaII	GGWCC	2 cut(s)	453, 886
BanII	GRGCYC	1 cut(s)	151
BauI	CACGAG	1 cut(s)	372
BbvCI	CCTCAGC	1 cut(s)	960
BbvI	GCAGC	1 cut(s)	31
BccI	CCATC	3 cut(s)	313, 484, 1199
BcgI	CGANNNNNNTGC	2 cut(s)	219, 253
BciT130I	CCWGG	1 cut(s)	1181
BclI	TGATCA	1 cut(s)	3
BcoDI	GTCTC	1 cut(s)	973
BfaI	CTAG	6 cut(s)	62, 87, 338, 768, 873, 1134
BfmI	CTRYAG	1 cut(s)	390
BglI	GCCNNNNNGGC	1 cut(s)	588
BglII	AGATCT	1 cut(s)	58
BisI	GCNGC	1 cut(s)	45
BlsI	GCNGC	1 cut(s)	46
Bme1390I	CCNGG	1 cut(s)	1181
Bme18I	GGWCC	2 cut(s)	453, 886
BmgT120I	GGNCC	2 cut(s)	453, 886
BmrFI	CCNGG	1 cut(s)	1181
BmrI	ACTGGG	1 cut(s)	645
BmsI	GCATC	1 cut(s)	31
BmuI	ACTGGG	1 cut(s)	645
Bpu10I	CCTNAGC	1 cut(s)	960
BpuEI	CTTGAG	1 cut(s)	263
BsaAI	YACGTR	1 cut(s)	166
BsaI	GGTCTC	1 cut(s)	973
Bsc4I	CCNNNNNNNGG	3 cut(s)	168, 526, 665
Bse1I	ACTGG	3 cut(s)	33, 455, 651
Bse3DI	GCAATG	1 cut(s)	230
BseBI	CCWGG	1 cut(s)	1181
BseLI	CCNNNNNNNGG	3 cut(s)	168, 526, 665
BseMI	GCAATG	1 cut(s)	230
BseMII	CTCAG	4 cut(s)	98, 395, 915, 951
BseNI	ACTGG	3 cut(s)	33, 455, 651
BseRI	GAGGAG	1 cut(s)	926
BseXI	GCAGC	1 cut(s)	31
BslI	CCNNNNNNNGG	3 cut(s)	168, 526, 665
BsmAI	GTCTC	1 cut(s)	973
Bso31I	GGTCTC	1 cut(s)	973
Bsp1286I	GDGCHC	1 cut(s)	151
Bsp1407I	TGTACA	2 cut(s)	480, 633
Bsp143I	GATC	6 cut(s)	3, 58, 377, 386, 553, 965
BspACI	CCGC	2 cut(s)	92, 169
BspCNI	CTCAG	4 cut(s)	99, 394, 916, 952
BspMAI	CTGCAG	1 cut(s)	394
BspPI	GGATC	4 cut(s)	385, 394, 561, 973
BspTNI	GGTCTC	1 cut(s)	973
BsrDI	GCAATG	1 cut(s)	230
BsrGI	TGTACA	2 cut(s)	480, 633
BsrI	ACTGG	3 cut(s)	33, 455, 651
BssMI	GATC	6 cut(s)	3, 58, 377, 386, 553, 965
BssSI	CACGAG	1 cut(s)	372
Bst2BI	CACGAG	1 cut(s)	372
Bst2UI	CCWGG	1 cut(s)	1181
Bst4CI	ACNGT	4 cut(s)	439, 748, 1187, 1243
BstAUI	TGTACA	2 cut(s)	480, 633
BstBAI	YACGTR	1 cut(s)	166
BstC8I	GCNNGC	2 cut(s)	171, 517
BstDEI	CTNAG	4 cut(s)	107, 381, 924, 960
BstENI	CCTNNNNNAGG	1 cut(s)	524
BstKTI	GATC	6 cut(s)	6, 61, 380, 389, 556, 968
BstMAI	GTCTC	1 cut(s)	973
BstMBI	GATC	6 cut(s)	3, 58, 377, 386, 553, 965
BstMWI	GCNNNNNNNGC	3 cut(s)	588, 683, 956
BstNI	CCWGG	1 cut(s)	1181
BstSCI	CCNGG	1 cut(s)	1179
BstSFI	CTRYAG	1 cut(s)	390
BstV1I	GCAGC	1 cut(s)	31
BstX2I	RGATCY	3 cut(s)	58, 377, 386
BstYI	RGATCY	3 cut(s)	58, 377, 386
BtsI	GCAGTG	1 cut(s)	598
BtsIMutI	CAGTG	2 cut(s)	598, 1192
Cac8I	GCNNGC	2 cut(s)	171, 517
Cfr13I	GGNCC	2 cut(s)	453, 886
Csp6I	GTAC	5 cut(s)	352, 481, 634, 876, 1239
CviAII	CATG	4 cut(s)	227, 674, 844, 879
CviQI	GTAC	5 cut(s)	352, 481, 634, 876, 1239
DdeI	CTNAG	4 cut(s)	107, 381, 924, 960
DpnI	GATC	6 cut(s)	5, 60, 379, 388, 555, 967
DpnII	GATC	6 cut(s)	3, 58, 377, 386, 553, 965
Eco24I	GRGCYC	1 cut(s)	151
Eco31I	GGTCTC	1 cut(s)	973
Eco47I	GGWCC	2 cut(s)	453, 886
Eco57I	CTGAAG	3 cut(s)	531, 542, 915
EcoNI	CCTNNNNNAGG	1 cut(s)	524
EcoO109I	RGGNCCY	1 cut(s)	886
EcoRI	GAATTC	1 cut(s)	1013
EcoRII	CCWGG	1 cut(s)	1179
EcoT22I	ATGCAT	1 cut(s)	232
EcoT38I	GRGCYC	1 cut(s)	151
FaeI	CATG	4 cut(s)	230, 677, 847, 882
FatI	CATG	4 cut(s)	226, 673, 843, 878
FauI	CCCGC	1 cut(s)	162
FauNDI	CATATG	1 cut(s)	1099
FbaI	TGATCA	1 cut(s)	3
FblI	GTMKAC	1 cut(s)	473
Fnu4HI	GCNGC	1 cut(s)	45
FriOI	GRGCYC	1 cut(s)	151
Fsp4HI	GCNGC	1 cut(s)	45
FspBI	CTAG	6 cut(s)	62, 87, 338, 768, 873, 1134
GluI	GCNGC	1 cut(s)	45
Hin1II	CATG	4 cut(s)	230, 677, 847, 882
HindIII	AAGCTT	2 cut(s)	513, 948
HinfI	GANTC	6 cut(s)	109, 194, 299, 540, 559, 1130
HphI	GGTGA	1 cut(s)	716
Hpy166II	GTNNAC	2 cut(s)	474, 634
Hpy188I	TCNGA	8 cut(s)	313, 558, 660, 698, 925, 1123, 1201, 1213
Hpy188III	TCNNGA	4 cut(s)	106, 487, 551, 1077
Hpy8I	GTNNAC	2 cut(s)	474, 634
HpyAV	CCTTC	7 cut(s)	121, 520, 707, 800, 890, 1015, 1022
HpyCH4III	ACNGT	4 cut(s)	439, 748, 1187, 1243
HpyCH4IV	ACGT	1 cut(s)	165
HpyCH4V	TGCA	7 cut(s)	47, 181, 230, 235, 392, 1103, 1234
HpyF10VI	GCNNNNNNNGC	3 cut(s)	588, 683, 956
HpyF3I	CTNAG	4 cut(s)	107, 381, 924, 960
HpySE526I	ACGT	1 cut(s)	165
Hsp92II	CATG	4 cut(s)	230, 677, 847, 882
Ksp22I	TGATCA	1 cut(s)	3
Kzo9I	GATC	6 cut(s)	3, 58, 377, 386, 553, 965
Lsp1109I	GCAGC	1 cut(s)	31
LweI	GCATC	1 cut(s)	31
MaeI	CTAG	6 cut(s)	62, 87, 338, 768, 873, 1134
MaeII	ACGT	1 cut(s)	165
MaeIII	GTNAC	3 cut(s)	599, 997, 1187
MalI	GATC	6 cut(s)	5, 60, 379, 388, 555, 967
MboI	GATC	6 cut(s)	3, 58, 377, 386, 553, 965
MboII	GAAGA	3 cut(s)	535, 815, 1139
MfeI	CAATTG	1 cut(s)	1229
MflI	RGATCY	3 cut(s)	58, 377, 386
MhlI	GDGCHC	1 cut(s)	151
MlyI	GAGTC	1 cut(s)	118
MmeI	TCCRAC	2 cut(s)	408, 956
Mph1103I	ATGCAT	1 cut(s)	232
MseI	TTAA	6 cut(s)	249, 441, 578, 750, 993, 1037
MslI	CAYNNNNRTG	2 cut(s)	488, 995
MspR9I	CCNGG	1 cut(s)	1181
MunI	CAATTG	1 cut(s)	1229
MvaI	CCWGG	1 cut(s)	1181
MwoI	GCNNNNNNNGC	3 cut(s)	588, 683, 956
NdeI	CATATG	1 cut(s)	1099
NdeII	GATC	6 cut(s)	3, 58, 377, 386, 553, 965
NlaIII	CATG	4 cut(s)	230, 677, 847, 882
NmuCI	GTSAC	2 cut(s)	997, 1187
NsiI	ATGCAT	1 cut(s)	232
PfeI	GAWTC	5 cut(s)	194, 299, 540, 559, 1130
PkrI	GCNGC	1 cut(s)	46
PleI	GAGTC	1 cut(s)	117
PpsI	GAGTC	1 cut(s)	117
Ppu21I	YACGTR	1 cut(s)	166
PpuMI	RGGWCCY	1 cut(s)	886
PshBI	ATTAAT	1 cut(s)	993
Psp5II	RGGWCCY	1 cut(s)	886
Psp6I	CCWGG	1 cut(s)	1179
PspGI	CCWGG	1 cut(s)	1179
PspPI	GGNCC	2 cut(s)	453, 886
PspPPI	RGGWCCY	1 cut(s)	886
PstI	CTGCAG	1 cut(s)	394
PsuI	RGATCY	3 cut(s)	58, 377, 386
RsaI	GTAC	5 cut(s)	353, 482, 635, 877, 1240
RsaNI	GTAC	5 cut(s)	352, 481, 634, 876, 1239
RseI	CAYNNNNRTG	2 cut(s)	488, 995
SaqAI	TTAA	6 cut(s)	249, 441, 578, 750, 993, 1037
SatI	GCNGC	1 cut(s)	45
Sau3AI	GATC	6 cut(s)	3, 58, 377, 386, 553, 965
Sau96I	GGNCC	2 cut(s)	453, 886
SchI	GAGTC	1 cut(s)	118
ScrFI	CCNGG	1 cut(s)	1181
SduI	GDGCHC	1 cut(s)	151
SfaNI	GCATC	1 cut(s)	31
SfcI	CTRYAG	1 cut(s)	390
SinI	GGWCC	2 cut(s)	453, 886
SmiMI	CAYNNNNRTG	2 cut(s)	488, 995
SmlI	CTYRAG	1 cut(s)	278
SmoI	CTYRAG	1 cut(s)	278
SsiI	CCGC	2 cut(s)	92, 169
SspMI	CTAG	6 cut(s)	62, 87, 338, 768, 873, 1134
StyD4I	CCNGG	1 cut(s)	1179
TaaI	ACNGT	4 cut(s)	439, 748, 1187, 1243
TaiI	ACGT	1 cut(s)	168
TaqI	TCGA	1 cut(s)	711
TatI	WGTACW	3 cut(s)	480, 633, 875
TfiI	GAWTC	5 cut(s)	194, 299, 540, 559, 1130
Tru1I	TTAA	6 cut(s)	249, 441, 578, 750, 993, 1037
Tru9I	TTAA	6 cut(s)	249, 441, 578, 750, 993, 1037
TscAI	CASTG	2 cut(s)	598, 1192
TseFI	GTSAC	2 cut(s)	997, 1187
TseI	GCWGC	1 cut(s)	44
Tsp45I	GTSAC	2 cut(s)	997, 1187
TspDTI	ATGAA	4 cut(s)	287, 437, 775, 1140
TspRI	CASTG	2 cut(s)	598, 1192
VpaK11BI	GGWCC	2 cut(s)	453, 886
VspI	ATTAAT	1 cut(s)	993
XagI	CCTNNNNNAGG	1 cut(s)	524
XapI	RAATTY	4 cut(s)	612, 661, 918, 1013
XmiI	GTMKAC	1 cut(s)	473
XspI	CTAG	6 cut(s)	62, 87, 338, 768, 873, 1134
Zsp2I	ATGCAT	1 cut(s)	232

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