Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1B

Orthogroup ID

OG0012289

Physical Location & Seq

Genomic Coordinates Reverse (-)

21590589 .. 21592283

Gene Structure 1695 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1BG127800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1695 bp

ATGTTTCGTAGATTAAGAATTGATGGGTTGTTACCGGATTGTTTTTCGATATCTAGTGTTCTGCCTGCGTGTGGAGGCTTGGTTGATGTTAAAGAGGGTCAGTTAGTTCATGCTATGGTTGAAAAGATTGGAGTGCATGCAGATGTTTTAGTAAGTAATGGGCTTCTTTCAATGTACTTCAAATTTGGTTGGTCTGAAGATGCTCAAATTTTTTTTGATGAGATGGTAGTTAGGGACTCTGTTAGTTGGAACACTGTGATTTGTGGGTACTCGCAGTTGGGGTTATTTGAGGAGGCAATCAATTTGTTCAGGGAAATGATAAAGGAATTCACACCTGATTTGCTAACAATCACATCCGTGCTCCGTGCTTGTTCACATTTATGGGACTTGGAACTTGCAAAATATGTTCATGGCTACATGAAAAGAAGTGGTTTTGAATTTGATACAATGGCGAACAATGTACTTATTGATACGTATGCAAAATGTGGAAGTCTGTTAGCTTCACGGGAAGTATTTGACTATATGGAATGCAGAGATTCTGTGTCATGGAATTCTATGATCAATGGTTACTTTCTTAATGGTTGTTTTGATGAAGGGTTAAATCTTTTTACGATGATGCGGAGTAATATGAAACCTGATTCTGTGAGTTGTGTGACGATTCTGTCTGTCTATACTCAACTCAGACATGTGGACCAGGGGAAAATGATCCACTGTGATATAGTGAAGCTGGGATTTGATTCAGATGTTATTGTCAACAATGTTCTTGTCGATTTGTATGCTAAATGTGGCAAAATACAAGATGCACTAAAAGTATTTGACAGCATGACAGCACGTGATGTTGTAACATGGAATAGCATAATTTCTGCATGCACTCATAATGAAGACTGTAGTTTAGGTTTTAGAATGATTCTTAGAATGAGAAATGAGGGAGTGATGCCTGACGCAGCAACAATGTTAGGCATCTTACCAGTGTGTTCCTTACTTGCTGCCAAGCAAAAAGGACAAGAGATCCATGGCTGCATTTTCAGGTTAGGATTTCATTCAGATGTTCCGGTTGGGAATGCACTAATTGAAATGTACTCTAGTTGTGGTAGCTTGGAAAGCTCCATACGAATATTTGAGCAAATGTACATAAAGGATGTGGTGACATGGACTTCGATGATCTCTGCATATGGGACATATGGTGAAGGTCAGAAAGCATTGAGAGCTTTTGAAGAAATGGAAGCAACTGGTGTTCTTCCTGATCATCTAGCTTTTCTGGCTGTCATATATGCTTGTAGCCATTCAGGTTTTGTAGAAGACGGTCTGGCTTACTTTGACCGAATGAAGAAACACTACAAAGTTGAGCCTAGGATGGAGCACTATGCTTGTGTAGTTGACCTTCTATCCCGCTCTGGGCTATTAGCTCAAGCCGAGGACTTTATCCATACAATGCCGATGAAGGCAGATGCAAGTATATGGGGATCTTTACTTAGTGCTTGCCGCGAAAATGGAGAAGAAAAGATAGCTGCACATGTCTCAGAGCAGATTGTTCAATTGAATTCTTATGACACGGGGTATCATGTTTTGGTGTCGAATGTATATGCAGCTTTAGGGAAGTGGGATAAAGTGAGAATGATGAGGAAATACATGAAAGCTAAAGGACTCACAAAAGATCCTGGATTTAGCTGGATGGAGATTCAAAAGAAGGGCTGA

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

DYW_deaminase PPR PPR_2 PPR_3

Protein Analysis

564

Amino Acids

63.38

Weight (kDa)

5.62

Isoelectric Point (pI)

39.96

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	79 - 125	4e-10	PPR repeat family
PPR	PF01535	81 - 108	1.1e-08	PPR repeat
PPR_2	PF13041	179 - 222	5.7e-07	PPR repeat family
PPR	PF01535	181 - 208	9.2e-07	PPR repeat
PPR_2	PF13041	278 - 318	3.2e-06	PPR repeat family
PPR_2	PF13041	379 - 427	5.7e-09	PPR repeat family
E_motif	PF20431	501 - 559	4.6e-14	E motif

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: OG0012289)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G03580
fragaria_vesca	FvH4_7g07570
malus_domestica	MD02G1235200.v1.1 MD02G1235800.v1.1
prunus_persica	Prupe.2G102800_v2.0.a1 Prupe.2G102800_v2.0.a1
pyrus_communis	pycom02g20250
rosa_chinensis	RchiOBHm_Chr1g0339001 RchiOBHm_Chr1g0343101
rosa_laevigata	RLG00000029204 RLG00000029208
rosa_multiflora	Rmu_sc0017585.1_g000006
rosa_roxburghii	Rroxscaffold_4G00313330
rosa_rugosa	Rorug01G0144200.1
rosa_samantha	Rh1AG160800 Rh1BG127800 Rh1CG150300 Rh1DG164000
rosa_wichuraiana	Rw1G013420

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	661
AccBSI	CCGCTC	1 cut(s)	1392
AccII	CGCG	1 cut(s)	1485
AciI	CCGC	3 cut(s)	619, 1390, 1483
AclWI	GGATC	4 cut(s)	700, 1003, 1471, 1649
AcsI	RAATTY	6 cut(s)	182, 207, 326, 437, 550, 1540
AcuI	CTGAAG	1 cut(s)	216
AcvI	CACGTG	1 cut(s)	833
AfaI	GTAC	5 cut(s)	176, 269, 462, 1079, 1130
AfiI	CCNNNNNNNGG	2 cut(s)	71, 1395
AflIII	ACRYGT	2 cut(s)	685, 1513
AgsI	TTSAA	9 cut(s)	122, 171, 181, 437, 1073, 1214, 1535, 1540, 1682
AjnI	CCWGG	2 cut(s)	693, 1657
AleI	CACNNNNGTG	1 cut(s)	356
Alw21I	GWGCWC	2 cut(s)	363, 1362
Alw26I	GTCTC	1 cut(s)	1522
AlwI	GGATC	4 cut(s)	700, 1003, 1471, 1649
ApeKI	GCWGC	5 cut(s)	944, 986, 1017, 1508, 1586
ApoI	RAATTY	6 cut(s)	182, 207, 326, 437, 550, 1540
ArsI	GACNNNNNNTTYG	2 cut(s)	1138, 1170
AspA2I	CCTAGG	1 cut(s)	1349
AspS9I	GGNCC	1 cut(s)	691
AsuHPI	GGTGA	2 cut(s)	1156, 1196
AvaII	GGWCC	1 cut(s)	691
AvrII	CCTAGG	1 cut(s)	1349
BarI	GAAGNNNNNNTAC	4 cut(s)	1319, 1351, 1365, 1397
BbrPI	CACGTG	1 cut(s)	833
BbsI	GAAGAC	2 cut(s)	888, 1305
Bbv12I	GWGCWC	2 cut(s)	363, 1362
BbvI	GCAGC	5 cut(s)	956, 973, 1004, 1495, 1598
BccI	CCATC	4 cut(s)	17, 217, 1348, 1666
BcgI	CGANNNNNNTGC	2 cut(s)	758, 792
BciT130I	CCWGG	2 cut(s)	695, 1659
BclI	TGATCA	2 cut(s)	558, 1243
BcoDI	GTCTC	1 cut(s)	1522
BfaI	CTAG	4 cut(s)	54, 1083, 1250, 1350
BfmI	CTRYAG	1 cut(s)	886
BisI	GCNGC	6 cut(s)	945, 987, 1018, 1483, 1509, 1587
BlnI	CCTAGG	1 cut(s)	1349
BlsI	GCNGC	6 cut(s)	946, 988, 1019, 1484, 1510, 1588
Bme1390I	CCNGG	2 cut(s)	695, 1659
Bme18I	GGWCC	1 cut(s)	691
BmgT120I	GGNCC	1 cut(s)	691
BmrFI	CCNGG	2 cut(s)	695, 1659
BmsI	GCATC	6 cut(s)	190, 606, 790, 924, 969, 1438
BpiI	GAAGAC	2 cut(s)	888, 1305
BpuEI	CTTGAG	1 cut(s)	1392
BsaAI	YACGTR	2 cut(s)	474, 833
BsaJI	CCNNGG	4 cut(s)	694, 1012, 1349, 1413
BsaWI	WCCGGW	2 cut(s)	34, 1051
BsaXI	ACNNNNNCTCC	2 cut(s)	66, 96
Bsc4I	CCNNNNNNNGG	2 cut(s)	71, 1395
Bse1I	ACTGG	2 cut(s)	968, 1234
BseBI	CCWGG	2 cut(s)	695, 1659
BseDI	CCNNGG	4 cut(s)	694, 1012, 1349, 1413
BseGI	GGATG	4 cut(s)	353, 1144, 1359, 1677
BseLI	CCNNNNNNNGG	2 cut(s)	71, 1395
BseMII	CTCAG	2 cut(s)	694, 1533
BseNI	ACTGG	2 cut(s)	968, 1234
BseRI	GAGGAG	1 cut(s)	305
BseXI	GCAGC	5 cut(s)	956, 973, 1004, 1495, 1598
BseYI	CCCAGC	1 cut(s)	727
BsgI	GTGCAG	1 cut(s)	1494
Bsh1236I	CGCG	1 cut(s)	1485
BsiHKAI	GWGCWC	2 cut(s)	363, 1362
BsiSI	CCGG	2 cut(s)	35, 1052
BslFI	GGGAC	3 cut(s)	248, 398, 1189
BslI	CCNNNNNNNGG	2 cut(s)	71, 1395
BsmAI	GTCTC	1 cut(s)	1522
BsmFI	GGGAC	3 cut(s)	248, 398, 1189
BsmI	GAATGC	2 cut(s)	533, 1066
Bsp1286I	GDGCHC	2 cut(s)	363, 1362
Bsp1407I	TGTACA	1 cut(s)	1128
Bsp143I	GATC	7 cut(s)	558, 705, 1008, 1161, 1243, 1463, 1654
Bsp19I	CCATGG	1 cut(s)	1012
BspACI	CCGC	3 cut(s)	619, 1390, 1483
BspCNI	CTCAG	2 cut(s)	693, 1532
BspFNI	CGCG	1 cut(s)	1485
BspPI	GGATC	4 cut(s)	700, 1003, 1471, 1649
BsrBI	CCGCTC	1 cut(s)	1392
BsrGI	TGTACA	1 cut(s)	1128
BsrI	ACTGG	2 cut(s)	968, 1234
BssECI	CCNNGG	4 cut(s)	694, 1012, 1349, 1413
BssMI	GATC	7 cut(s)	558, 705, 1008, 1161, 1243, 1463, 1654
BssT1I	CCWWGG	2 cut(s)	1012, 1349
Bst2UI	CCWGG	2 cut(s)	695, 1659
Bst4CI	ACNGT	4 cut(s)	256, 713, 887, 1304
BstAUI	TGTACA	1 cut(s)	1128
BstBAI	YACGTR	2 cut(s)	474, 833
BstC8I	GCNNGC	4 cut(s)	66, 138, 868, 1480
BstDEI	CTNAG	4 cut(s)	680, 911, 1472, 1519
BstDSI	CCRYGG	1 cut(s)	1012
BstF5I	GGATG	4 cut(s)	353, 1144, 1359, 1677
BstFNI	CGCG	1 cut(s)	1485
BstKTI	GATC	7 cut(s)	561, 708, 1011, 1164, 1246, 1466, 1657
BstMAI	GTCTC	1 cut(s)	1522
BstMBI	GATC	7 cut(s)	558, 705, 1008, 1161, 1243, 1463, 1654
BstMWI	GCNNNNNNNGC	3 cut(s)	1101, 1205, 1259
BstNI	CCWGG	2 cut(s)	695, 1659
BstNSI	RCATGY	4 cut(s)	140, 689, 870, 1517
BstSCI	CCNGG	2 cut(s)	693, 1657
BstSFI	CTRYAG	1 cut(s)	886
BstSNI	TACGTA	1 cut(s)	474
BstUI	CGCG	1 cut(s)	1485
BstV1I	GCAGC	5 cut(s)	956, 973, 1004, 1495, 1598
BstV2I	GAAGAC	2 cut(s)	888, 1305
BstX2I	RGATCY	3 cut(s)	1008, 1463, 1654
BstYI	RGATCY	3 cut(s)	1008, 1463, 1654
BtgI	CCRYGG	1 cut(s)	1012
BtsCI	GGATG	4 cut(s)	353, 1144, 1359, 1677
BtsIMutI	CAGTG	3 cut(s)	252, 709, 975
Cac8I	GCNNGC	4 cut(s)	66, 138, 868, 1480
Cfr13I	GGNCC	1 cut(s)	691
CseI	GACGC	1 cut(s)	950
Csp6I	GTAC	5 cut(s)	175, 268, 461, 1078, 1129
CviQI	GTAC	5 cut(s)	175, 268, 461, 1078, 1129
DdeI	CTNAG	4 cut(s)	680, 911, 1472, 1519
DpnI	GATC	7 cut(s)	560, 707, 1010, 1163, 1245, 1465, 1656
DpnII	GATC	7 cut(s)	558, 705, 1008, 1161, 1243, 1463, 1654
DrdI	GACNNNNNNGTC	1 cut(s)	661
DseDI	GACNNNNNNGTC	1 cut(s)	661
Eco105I	TACGTA	1 cut(s)	474
Eco130I	CCWWGG	2 cut(s)	1012, 1349
Eco32I	GATATC	1 cut(s)	51
Eco47I	GGWCC	1 cut(s)	691
Eco57I	CTGAAG	1 cut(s)	216
Eco72I	CACGTG	1 cut(s)	833
EcoRI	GAATTC	3 cut(s)	326, 550, 1540
EcoRII	CCWGG	2 cut(s)	693, 1657
EcoRV	GATATC	1 cut(s)	51
EcoT14I	CCWWGG	2 cut(s)	1012, 1349
ErhI	CCWWGG	2 cut(s)	1012, 1349
FaqI	GGGAC	3 cut(s)	248, 398, 1189
FauI	CCCGC	1 cut(s)	1397
FauNDI	CATATG	2 cut(s)	1171, 1180
FbaI	TGATCA	2 cut(s)	558, 1243
Fnu4HI	GCNGC	6 cut(s)	945, 987, 1018, 1483, 1509, 1587
FokI	GGATG	4 cut(s)	340, 1151, 1366, 1684
Fsp4HI	GCNGC	6 cut(s)	945, 987, 1018, 1483, 1509, 1587
FspBI	CTAG	4 cut(s)	54, 1083, 1250, 1350
GluI	GCNGC	6 cut(s)	945, 987, 1018, 1483, 1509, 1587
GsaI	CCCAGC	1 cut(s)	731
HapII	CCGG	2 cut(s)	35, 1052
HgaI	GACGC	1 cut(s)	950
HincII	GTYRAC	2 cut(s)	754, 1378
HindII	GTYRAC	2 cut(s)	754, 1378
HinfI	GANTC	8 cut(s)	236, 536, 638, 658, 737, 907, 1644, 1678
HpaII	CCGG	2 cut(s)	35, 1052
HphI	GGTGA	2 cut(s)	1156, 1196
Hpy166II	GTNNAC	4 cut(s)	374, 691, 754, 1378
Hpy188I	TCNGA	6 cut(s)	196, 683, 742, 1045, 1194, 1522
Hpy188III	TCNNGA	1 cut(s)	1241
Hpy8I	GTNNAC	4 cut(s)	374, 691, 754, 1378
HpyAV	CCTTC	5 cut(s)	587, 1181, 1391, 1435, 1681
HpyCH4III	ACNGT	4 cut(s)	256, 713, 887, 1304
HpyCH4IV	ACGT	2 cut(s)	473, 832
HpyF10VI	GCNNNNNNNGC	3 cut(s)	1101, 1205, 1259
HpyF3I	CTNAG	4 cut(s)	680, 911, 1472, 1519
HpySE526I	ACGT	2 cut(s)	473, 832
Ksp22I	TGATCA	2 cut(s)	558, 1243
Kzo9I	GATC	7 cut(s)	558, 705, 1008, 1161, 1243, 1463, 1654
LmnI	GCTCC	3 cut(s)	366, 1109, 1357
Lsp1109I	GCAGC	5 cut(s)	956, 973, 1004, 1495, 1598
LweI	GCATC	6 cut(s)	190, 606, 790, 924, 969, 1438
MaeI	CTAG	4 cut(s)	54, 1083, 1250, 1350
MaeII	ACGT	2 cut(s)	473, 832
MaeIII	GTNAC	5 cut(s)	30, 566, 652, 841, 1144
MalI	GATC	7 cut(s)	560, 707, 1010, 1163, 1245, 1465, 1656
MbiI	CCGCTC	1 cut(s)	1392
MboI	GATC	7 cut(s)	558, 705, 1008, 1161, 1243, 1463, 1654
MboII	GAAGA	7 cut(s)	209, 893, 1226, 1229, 1310, 1339, 1508
MfeI	CAATTG	1 cut(s)	1535
MflI	RGATCY	3 cut(s)	1008, 1463, 1654
MhlI	GDGCHC	2 cut(s)	363, 1362
MlyI	GAGTC	2 cut(s)	230, 1638
MmeI	TCCRAC	1 cut(s)	227
MnlI	CCTC	7 cut(s)	68, 88, 283, 286, 919, 1408, 1614
MseI	TTAA	4 cut(s)	14, 90, 576, 599
MslI	CAYNNNNRTG	4 cut(s)	141, 356, 379, 1044
MspI	CCGG	2 cut(s)	35, 1052
MspR9I	CCNGG	2 cut(s)	695, 1659
MunI	CAATTG	1 cut(s)	1535
Mva1269I	GAATGC	2 cut(s)	533, 1066
MvaI	CCWGG	2 cut(s)	695, 1659
MvnI	CGCG	1 cut(s)	1485
MwoI	GCNNNNNNNGC	3 cut(s)	1101, 1205, 1259
NcoI	CCATGG	1 cut(s)	1012
NdeI	CATATG	2 cut(s)	1171, 1180
NdeII	GATC	7 cut(s)	558, 705, 1008, 1161, 1243, 1463, 1654
NmeAIII	GCCGAG	1 cut(s)	1438
NmuCI	GTSAC	2 cut(s)	652, 1144
NspI	RCATGY	4 cut(s)	140, 689, 870, 1517
OliI	CACNNNNGTG	1 cut(s)	356
PaeI	GCATGC	2 cut(s)	140, 870
PciI	ACATGT	2 cut(s)	685, 1513
PctI	GAATGC	2 cut(s)	533, 1066
PfeI	GAWTC	6 cut(s)	536, 638, 658, 737, 907, 1678
PfoI	TCCNGGA	1 cut(s)	1657
PkrI	GCNGC	6 cut(s)	946, 988, 1019, 1484, 1510, 1588
PleI	GAGTC	2 cut(s)	230, 1638
PmaCI	CACGTG	1 cut(s)	833
PmlI	CACGTG	1 cut(s)	833
PpsI	GAGTC	2 cut(s)	230, 1638
Ppu21I	YACGTR	2 cut(s)	474, 833
PscI	ACATGT	2 cut(s)	685, 1513
Psp6I	CCWGG	2 cut(s)	693, 1657
PspCI	CACGTG	1 cut(s)	833
PspFI	CCCAGC	1 cut(s)	727
PspGI	CCWGG	2 cut(s)	693, 1657
PspPI	GGNCC	1 cut(s)	691
PsuI	RGATCY	3 cut(s)	1008, 1463, 1654
RsaI	GTAC	5 cut(s)	176, 269, 462, 1079, 1130
RsaNI	GTAC	5 cut(s)	175, 268, 461, 1078, 1129
RseI	CAYNNNNRTG	4 cut(s)	141, 356, 379, 1044
SaqAI	TTAA	4 cut(s)	14, 90, 576, 599
SatI	GCNGC	6 cut(s)	945, 987, 1018, 1483, 1509, 1587
Sau3AI	GATC	7 cut(s)	558, 705, 1008, 1161, 1243, 1463, 1654
Sau96I	GGNCC	1 cut(s)	691
SchI	GAGTC	2 cut(s)	230, 1638
ScrFI	CCNGG	2 cut(s)	695, 1659
SduI	GDGCHC	2 cut(s)	363, 1362
SfaNI	GCATC	6 cut(s)	190, 606, 790, 924, 969, 1438
SfcI	CTRYAG	1 cut(s)	886
SinI	GGWCC	1 cut(s)	691
SmiMI	CAYNNNNRTG	4 cut(s)	141, 356, 379, 1044
SmlI	CTYRAG	1 cut(s)	1407
SmoI	CTYRAG	1 cut(s)	1407
SnaBI	TACGTA	1 cut(s)	474
SphI	GCATGC	2 cut(s)	140, 870
SsiI	CCGC	3 cut(s)	619, 1390, 1483
SspI	AATATT	1 cut(s)	1116
SspMI	CTAG	4 cut(s)	54, 1083, 1250, 1350
StyD4I	CCNGG	2 cut(s)	693, 1657
StyI	CCWWGG	2 cut(s)	1012, 1349
TaaI	ACNGT	4 cut(s)	256, 713, 887, 1304
TaiI	ACGT	2 cut(s)	476, 835
TaqI	TCGA	4 cut(s)	47, 768, 1157, 1574
TaqII	GACCGA	1 cut(s)	1335
TatI	WGTACW	4 cut(s)	174, 460, 1077, 1128
TauI	GCSGC	1 cut(s)	1485
TfiI	GAWTC	6 cut(s)	536, 638, 658, 737, 907, 1678
Tru1I	TTAA	4 cut(s)	14, 90, 576, 599
Tru9I	TTAA	4 cut(s)	14, 90, 576, 599
TscAI	CASTG	3 cut(s)	259, 716, 975
TseFI	GTSAC	2 cut(s)	652, 1144
TseI	GCWGC	5 cut(s)	944, 986, 1017, 1508, 1586
Tsp45I	GTSAC	2 cut(s)	652, 1144
TspGWI	ACGGA	2 cut(s)	346, 353
TspRI	CASTG	3 cut(s)	259, 716, 975
VpaK11BI	GGWCC	1 cut(s)	691
XapI	RAATTY	6 cut(s)	182, 207, 326, 437, 550, 1540
XceI	RCATGY	4 cut(s)	140, 689, 870, 1517
XmaJI	CCTAGG	1 cut(s)	1349
XspI	CTAG	4 cut(s)	54, 1083, 1250, 1350

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