Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2B

Orthogroup ID

OG0008082

Physical Location & Seq

Genomic Coordinates Reverse (-)

87370973 .. 87372421

Gene Structure 1449 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2BG656800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1449 bp

ATGGTGACGGTTGGGCGGGTTAAGCCTGAGCGAGTGACGCTTGTTAGTGCTGCTTCTGCTTGTGCTCAGCTCTCGAGTTTTAGACTTGGAAGTTGTGTTCATGGTGTTTCTATTAGGAATGGGTTCGATTCTGATTTGTGTTTGGTAAATTCATTGCTAAATCTATATGCAAAAACGGGTTCTATCAGAACTGCCACTAGCTTGTTTTGGAAGATGCCAGAAAAAGATGTTATTTCTTGGAGCTCCATGATTGCTTGTTACACTCATAATGGGGATGTACTCAAAGCGTTGGATCTTTTCAGAGAAATGATTGATAGGGGAGTTGAGCCTAATTCAGTAACTGTGAGCAATGCATTACAAGCGTGTGCAGTGGCCTGTAACTTAGACGAGGGTAAAAAAATCCATGAACTTGCCACTAGGAAAGGTTTCGAGTTAGATGTCACAGTAGCTACAGCCCTGATCGACATGTACATGAAGTGCTCTCAACTTCAAGAAGCAGTTGATCTCTTCAGAAGAATGCCGAAAAAAGATGTGGTTTCTTGGGTTGCTTTGTTAAGTGGGTATGCTCAACATGGGATGGCATACAAATCGATGGAGATCTTTCGTAACATGCTATTAGATGAAACTCAACCTGATGCTGTTGCTATGGTTAAGATTCTTGCAGCGTGTGCAGAATTAGGGAACCTTCAACAAGCTCTTTGCCTCCATGCTTATGTGATTAAAACTGCCTTCAAGGATAATATCTTCGTTGGAGCTTCACTCATAGAGCTGTACTCAAAATGTGGTAGCATAGACAATGCAGTCCGATTATTTGAAGGGATGGCGTACAAGGATGTTGTTATCTGGAGTGCAATGATTGCAGGTTACGGAGTCCATGGACAAGGAGGAGAAGCTTTGAAAGCATTTGATCATATGGTTAAGCACGCAGCTGTTACGCCTAATGATGTAACATTTACCTCTGTTTTATCTGCGTGTAGCCATTCAGGTTTGGTTGAAGAAGGTTTGGGGATATTCAATATGATGTTGCATCAATACCAACTGAAGCCCAGAGCCGAGCATTATGGAATACTGGTTGATCTTCTTGGCCGAACAGGAGAGTTGGACAAGGCCATGGAAATTGTTGAGCGAATGCCAAACCCAGCTGCACCCCATGTTTGGGGAGCCTTGCTTGGTGCATGTCGGATTCATAACAATATCGAGCTGGGAGAGGTTGTAGCAAAAAGACTTTTGGAGTTAGAACCGGATCATGCAGGTTATTACATACTGCTGTCAAATATATATGCCATGGATAATAAATGGGAAAATGTATTTAATCTTAGAACTTCCATAAGGAAGAAGGGGTTAAAGAAGATCTTTGGACAGAGTGTGGTTGAGGCAGGGAGTGAGATCCGTAGTTTTGTTGCCGGAGATAGATTTCATCCTGAATTTGATCGATCTATGGATTGCTGA

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

Protein Analysis

482

Amino Acids

53.17

Weight (kDa)

6.44

Isoelectric Point (pI)

38.48

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TPR_24	PF23276	52 - 172	5.2e-07	Fungal tetratrico peptide repeats
PPR_2	PF13041	75 - 123	2.9e-12	PPR repeat family
PPR	PF01535	78 - 108	9.3e-09	PPR repeat
PPR_2	PF13041	277 - 326	4.6e-10	PPR repeat family
E_motif	PF20431	396 - 458	4.4e-16	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: OG0008082)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G01580
fragaria_vesca	FvH4_6g51580 FvH4_6g51620
malus_domestica	MD07G1177500.v1.1 MD17G1023700.v1.1 MD17G1024400.v1.1 MD17G1024800.v1.1 MD17G1025100.v1.1 MD17G1025800.v1.1 MD17G1026000.v1.1
prunus_persica	Prupe.3G292700_v2.0.a1
pyrus_communis	pycom07g17150 pycom17g02080 pycom17g02110
rosa_laevigata	RLG00000022166
rosa_multiflora	Rmu_sc0000860.1_g000001 Rmu_sc0016793.1_g000001
rosa_roxburghii	Rroxscaffold_2G00079160
rosa_rugosa	Rorug02G0565900
rosa_samantha	Rh2AG646100 Rh2BG656800 Rh2CG621900 Rh2DG670200
rosa_wichuraiana	Rw2G053060

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	800
Acc36I	ACCTGC	2 cut(s)	851, 1241
AciI	CCGC	1 cut(s)	16
AclWI	GGATC	3 cut(s)	300, 1251, 1381
AcoI	YGGCCR	1 cut(s)	1084
AcsI	RAATTY	2 cut(s)	148, 1424
AcuI	CTGAAG	2 cut(s)	493, 1061
AfaI	GTAC	4 cut(s)	279, 470, 773, 827
AfiI	CCNNNNNNNGG	2 cut(s)	1155, 1156
AflIII	ACRYGT	1 cut(s)	465
AgsI	TTSAA	7 cut(s)	491, 689, 733, 815, 898, 995, 1015
AloI	GAACNNNNNNTCC	2 cut(s)	81, 113
Alw21I	GWGCWC	3 cut(s)	67, 245, 482
AlwI	GGATC	3 cut(s)	300, 1251, 1381
AlwNI	CAGNNNCTG	1 cut(s)	341
Ama87I	CYCGRG	1 cut(s)	73
AoxI	GGCC	3 cut(s)	372, 1084, 1107
ApeKI	GCWGC	4 cut(s)	50, 662, 926, 1142
ApoI	RAATTY	2 cut(s)	148, 1424
Asp700I	GAANNNNTTC	2 cut(s)	122, 425
AsuHPI	GGTGA	1 cut(s)	16
AvaI	CYCGRG	1 cut(s)	73
BanII	GRGCYC	1 cut(s)	245
Bbv12I	GWGCWC	3 cut(s)	67, 245, 482
BbvI	GCAGC	4 cut(s)	37, 674, 938, 1129
BccI	CCATC	3 cut(s)	571, 586, 814
BcgI	CGANNNNNNTGC	2 cut(s)	570, 604
BclI	TGATCA	1 cut(s)	907
BfaI	CTAG	2 cut(s)	198, 417
BfmI	CTRYAG	1 cut(s)	450
BfuAI	ACCTGC	2 cut(s)	851, 1241
BglII	AGATCT	2 cut(s)	597, 1350
BisI	GCNGC	4 cut(s)	51, 663, 927, 1143
BlpI	GCTNAGC	1 cut(s)	66
BlsI	GCNGC	4 cut(s)	52, 664, 928, 1144
BmeT110I	CYCGRG	1 cut(s)	73
BmiI	GGNNCC	2 cut(s)	683, 1162
BmsI	GCATC	3 cut(s)	204, 625, 1036
BplI	GAGNNNNNCTC	4 cut(s)	744, 776, 758, 790
BpmI	CTGGAG	1 cut(s)	865
Bpu10I	CCTNAGC	1 cut(s)	27
Bpu1102I	GCTNAGC	1 cut(s)	66
Bsa29I	ATCGAT	2 cut(s)	590, 1432
BsaBI	GATNNNNATC	1 cut(s)	596
BsaJI	CCNNGG	3 cut(s)	874, 1110, 1284
BsaWI	WCCGGW	1 cut(s)	1240
BsaXI	ACNNNNNCTCC	2 cut(s)	1197, 1227
Bsc4I	CCNNNNNNNGG	2 cut(s)	1155, 1156
Bse1I	ACTGG	1 cut(s)	1074
Bse3DI	GCAATG	3 cut(s)	152, 355, 858
Bse8I	GATNNNNATC	1 cut(s)	596
BseCI	ATCGAT	2 cut(s)	590, 1432
BseDI	CCNNGG	3 cut(s)	874, 1110, 1284
BseGI	GGATG	5 cut(s)	280, 582, 825, 838, 1417
BseJI	GATNNNNATC	1 cut(s)	596
BseLI	CCNNNNNNNGG	2 cut(s)	1155, 1156
BseMI	GCAATG	3 cut(s)	152, 355, 858
BseMII	CTCAG	2 cut(s)	18, 80
BseNI	ACTGG	1 cut(s)	1074
BseRI	GAGGAG	1 cut(s)	900
BseXI	GCAGC	4 cut(s)	37, 674, 938, 1129
BseYI	CCCAGC	2 cut(s)	1138, 1201
BsgI	GTGCAG	3 cut(s)	387, 690, 1128
BshFI	GGCC	3 cut(s)	374, 1086, 1109
BshVI	ATCGAT	2 cut(s)	590, 1432
BsiHKAI	GWGCWC	3 cut(s)	67, 245, 482
BsiHKCI	CYCGRG	1 cut(s)	73
BsiSI	CCGG	2 cut(s)	1241, 1404
BslI	CCNNNNNNNGG	2 cut(s)	1155, 1156
BsmI	GAATGC	2 cut(s)	522, 1134
BsnI	GGCC	3 cut(s)	374, 1086, 1109
BsoBI	CYCGRG	1 cut(s)	73
Bsp1286I	GDGCHC	3 cut(s)	67, 245, 482
Bsp1407I	TGTACA	1 cut(s)	468
Bsp1720I	GCTNAGC	1 cut(s)	66
Bsp19I	CCATGG	3 cut(s)	874, 1110, 1284
BspACI	CCGC	1 cut(s)	16
BspANI	GGCC	3 cut(s)	374, 1086, 1109
BspCNI	CTCAG	2 cut(s)	19, 79
BspDI	ATCGAT	2 cut(s)	590, 1432
BspLI	GGNNCC	2 cut(s)	683, 1162
BspMI	ACCTGC	2 cut(s)	851, 1241
BspPI	GGATC	3 cut(s)	300, 1251, 1381
BsrDI	GCAATG	3 cut(s)	152, 355, 858
BsrGI	TGTACA	1 cut(s)	468
BsrI	ACTGG	1 cut(s)	1074
BssECI	CCNNGG	3 cut(s)	874, 1110, 1284
BssT1I	CCWWGG	3 cut(s)	874, 1110, 1284
Bst4CI	ACNGT	3 cut(s)	10, 343, 445
Bst6I	CTCTTC	1 cut(s)	512
BstAPI	GCANNNNNTGC	2 cut(s)	668, 857
BstAUI	TGTACA	1 cut(s)	468
BstC8I	GCNNGC	1 cut(s)	924
BstDEI	CTNAG	4 cut(s)	27, 66, 382, 1316
BstDSI	CCRYGG	3 cut(s)	874, 1110, 1284
BstF5I	GGATG	5 cut(s)	280, 582, 825, 838, 1417
BstMWI	GCNNNNNNNGC	7 cut(s)	22, 37, 56, 359, 668, 857, 899
BstNSI	RCATGY	3 cut(s)	469, 613, 1179
BstSFI	CTRYAG	1 cut(s)	450
BstV1I	GCAGC	4 cut(s)	37, 674, 938, 1129
BstX2I	RGATCY	4 cut(s)	292, 597, 1350, 1386
BstYI	RGATCY	4 cut(s)	292, 597, 1350, 1386
Bsu15I	ATCGAT	2 cut(s)	590, 1432
BsuRI	GGCC	3 cut(s)	374, 1086, 1109
BsuTUI	ATCGAT	2 cut(s)	590, 1432
BtgI	CCRYGG	3 cut(s)	874, 1110, 1284
BtsCI	GGATG	5 cut(s)	280, 582, 825, 838, 1417
BtsI	GCAGTG	1 cut(s)	375
BtsIMutI	CAGTG	1 cut(s)	375
BveI	ACCTGC	2 cut(s)	851, 1241
Cac8I	GCNNGC	1 cut(s)	924
CaiI	CAGNNNCTG	1 cut(s)	341
ClaI	ATCGAT	2 cut(s)	590, 1432
CseI	GACGC	1 cut(s)	46
Csp6I	GTAC	4 cut(s)	278, 469, 772, 826
CviQI	GTAC	4 cut(s)	278, 469, 772, 826
DdeI	CTNAG	4 cut(s)	27, 66, 382, 1316
DrdI	GACNNNNNNGTC	1 cut(s)	800
DseDI	GACNNNNNNGTC	1 cut(s)	800
EaeI	YGGCCR	1 cut(s)	1084
Eam1104I	CTCTTC	1 cut(s)	512
EarI	CTCTTC	1 cut(s)	512
Ecl136II	GAGCTC	1 cut(s)	243
Eco130I	CCWWGG	3 cut(s)	874, 1110, 1284
Eco24I	GRGCYC	1 cut(s)	245
Eco53kI	GAGCTC	1 cut(s)	243
Eco57I	CTGAAG	2 cut(s)	493, 1061
Eco88I	CYCGRG	1 cut(s)	73
EcoICRI	GAGCTC	1 cut(s)	243
EcoT14I	CCWWGG	3 cut(s)	874, 1110, 1284
EcoT22I	ATGCAT	1 cut(s)	355
EcoT38I	GRGCYC	1 cut(s)	245
ErhI	CCWWGG	3 cut(s)	874, 1110, 1284
FalI	AAGNNNNNCTT	2 cut(s)	1337, 1369
FauI	CCCGC	1 cut(s)	9
FauNDI	CATATG	1 cut(s)	912
FbaI	TGATCA	1 cut(s)	907
Fnu4HI	GCNGC	4 cut(s)	51, 663, 927, 1143
FokI	GGATG	5 cut(s)	287, 589, 832, 845, 1404
FriOI	GRGCYC	1 cut(s)	245
Fsp4HI	GCNGC	4 cut(s)	51, 663, 927, 1143
FspBI	CTAG	2 cut(s)	198, 417
GluI	GCNGC	4 cut(s)	51, 663, 927, 1143
GsaI	CCCAGC	2 cut(s)	1142, 1205
GsuI	CTGGAG	1 cut(s)	865
HaeIII	GGCC	3 cut(s)	374, 1086, 1109
HapII	CCGG	2 cut(s)	1241, 1404
HgaI	GACGC	1 cut(s)	46
HindIII	AAGCTT	1 cut(s)	891
HinfI	GANTC	4 cut(s)	128, 655, 870, 1183
HpaII	CCGG	2 cut(s)	1241, 1404
HphI	GGTGA	1 cut(s)	16
Hpy188I	TCNGA	6 cut(s)	133, 188, 302, 512, 806, 1182
Hpy188III	TCNNGA	4 cut(s)	73, 491, 844, 1421
HpyAV	CCTTC	5 cut(s)	695, 739, 809, 992, 1330
HpyCH4III	ACNGT	3 cut(s)	10, 343, 445
HpyF10VI	GCNNNNNNNGC	7 cut(s)	22, 37, 56, 359, 668, 857, 899
HpyF3I	CTNAG	4 cut(s)	27, 66, 382, 1316
Ksp22I	TGATCA	1 cut(s)	907
LmnI	GCTCC	4 cut(s)	240, 248, 752, 1160
Lsp1109I	GCAGC	4 cut(s)	37, 674, 938, 1129
LweI	GCATC	3 cut(s)	204, 625, 1036
MaeI	CTAG	2 cut(s)	198, 417
MboII	GAAGA	8 cut(s)	223, 499, 525, 736, 1007, 1070, 1345, 1360
MflI	RGATCY	4 cut(s)	292, 597, 1350, 1386
MhlI	GDGCHC	3 cut(s)	67, 245, 482
MluCI	AATT	5 cut(s)	148, 331, 674, 1116, 1424
MlyI	GAGTC	1 cut(s)	879
MmeI	TCCRAC	4 cut(s)	270, 730, 1080, 1160
MnlI	CCTC	6 cut(s)	382, 713, 878, 967, 1201, 1366
Mph1103I	ATGCAT	1 cut(s)	355
MroXI	GAANNNNTTC	2 cut(s)	122, 425
MseI	TTAA	7 cut(s)	21, 554, 651, 720, 918, 1311, 1343
MslI	CAYNNNNRTG	2 cut(s)	470, 711
MspA1I	CMGCKG	2 cut(s)	929, 1142
MspI	CCGG	2 cut(s)	1241, 1404
Mva1269I	GAATGC	2 cut(s)	522, 1134
MwoI	GCNNNNNNNGC	7 cut(s)	22, 37, 56, 359, 668, 857, 899
NcoI	CCATGG	3 cut(s)	874, 1110, 1284
NdeI	CATATG	1 cut(s)	912
NlaIV	GGNNCC	2 cut(s)	683, 1162
NmeAIII	GCCGAG	1 cut(s)	1078
NmuCI	GTSAC	3 cut(s)	4, 34, 439
NsiI	ATGCAT	1 cut(s)	355
NspI	RCATGY	3 cut(s)	469, 613, 1179
PaeR7I	CTCGAG	1 cut(s)	73
PciI	ACATGT	1 cut(s)	465
PctI	GAATGC	2 cut(s)	522, 1134
PdmI	GAANNNNTTC	2 cut(s)	122, 425
PfeI	GAWTC	3 cut(s)	128, 655, 1183
PkrI	GCNGC	4 cut(s)	52, 664, 928, 1144
PleI	GAGTC	1 cut(s)	878
PpsI	GAGTC	1 cut(s)	878
PscI	ACATGT	1 cut(s)	465
Psp124BI	GAGCTC	1 cut(s)	245
PspFI	CCCAGC	2 cut(s)	1138, 1201
PspN4I	GGNNCC	2 cut(s)	683, 1162
PstNI	CAGNNNCTG	1 cut(s)	341
PsuI	RGATCY	4 cut(s)	292, 597, 1350, 1386
PvuII	CAGCTG	2 cut(s)	929, 1142
RsaI	GTAC	4 cut(s)	279, 470, 773, 827
RsaNI	GTAC	4 cut(s)	278, 469, 772, 826
RseI	CAYNNNNRTG	2 cut(s)	470, 711
SacI	GAGCTC	1 cut(s)	245
SaqAI	TTAA	7 cut(s)	21, 554, 651, 720, 918, 1311, 1343
SatI	GCNGC	4 cut(s)	51, 663, 927, 1143
SchI	GAGTC	1 cut(s)	879
SduI	GDGCHC	3 cut(s)	67, 245, 482
SfaNI	GCATC	3 cut(s)	204, 625, 1036
SfcI	CTRYAG	1 cut(s)	450
Sfr274I	CTCGAG	1 cut(s)	73
SlaI	CTCGAG	1 cut(s)	73
SmiMI	CAYNNNNRTG	2 cut(s)	470, 711
SmlI	CTYRAG	1 cut(s)	73
SmoI	CTYRAG	1 cut(s)	73
Sse9I	AATT	5 cut(s)	148, 331, 674, 1116, 1424
SsiI	CCGC	1 cut(s)	16
SspMI	CTAG	2 cut(s)	198, 417
SstI	GAGCTC	1 cut(s)	245
StyI	CCWWGG	3 cut(s)	874, 1110, 1284
TaaI	ACNGT	3 cut(s)	10, 343, 445
TaqI	TCGA	7 cut(s)	74, 126, 429, 462, 590, 1197, 1432
TasI	AATT	5 cut(s)	148, 331, 674, 1116, 1424
TatI	WGTACW	3 cut(s)	277, 468, 771
TfiI	GAWTC	3 cut(s)	128, 655, 1183
Tru1I	TTAA	7 cut(s)	21, 554, 651, 720, 918, 1311, 1343
Tru9I	TTAA	7 cut(s)	21, 554, 651, 720, 918, 1311, 1343
TscAI	CASTG	1 cut(s)	375
TseFI	GTSAC	3 cut(s)	4, 34, 439
TseI	GCWGC	4 cut(s)	50, 662, 926, 1142
Tsp45I	GTSAC	3 cut(s)	4, 34, 439
TspDTI	ATGAA	7 cut(s)	89, 141, 420, 488, 636, 1175, 1406
TspGWI	ACGGA	2 cut(s)	882, 1379
TspRI	CASTG	1 cut(s)	375
XapI	RAATTY	2 cut(s)	148, 1424
XceI	RCATGY	3 cut(s)	469, 613, 1179
XhoI	CTCGAG	1 cut(s)	73
XmnI	GAANNNNTTC	2 cut(s)	122, 425
XspI	CTAG	2 cut(s)	198, 417
Zsp2I	ATGCAT	1 cut(s)	355

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