Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4A

Orthogroup ID

OG0012032

Physical Location & Seq

Genomic Coordinates Forward (+)

63695046 .. 63698110

Gene Structure 3065 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4AG325000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1371 bp

ATGACTGCAACTGCAAGAAATCAAAGAGAAGTGATCATGTGGCCTAGATTAGTGGCGAACAAAATTCTGAAGAAGCGATTGGGAAGCAACAACTTTGTAGCAGATTTCCCAAGCAACTCGGAAGACTCCACCTTGCAGCTGGAAACACCAAGCTTTGATCCAGAGAAACCGTTATCTTTATGCCCGACGACACCAGCTCCAAAAATCTTGAATCACCACAAGCACACACACAATTACAAGGTTTTTGTTAGTACATGGAATGTTGGTGGAGTTGAACCACGAGATGATATGAACATGGCGGATTGGATTACTGACACATCCTGTGACATCTATGTTTTTGGGTTTCAAGAAATTGTTCCTCTCAAAGCCTCAAATGTTCTGGGATCTGAGAATAGTATGATCTGCATGAAGTGGAACTCCTTCATTAGAGAAACTTTGAACAAGAAAATAAACCACCCGGGAGACAAGAATAAGGAAAAAAATGGAAAGTCAACCATTGTGGAAAGCAGCACCAATTCAGAATCACAGGATTACTTCCAGTGTATTATAAGTAAGCAAATGGTGGGAATACTAATAACAGTCTGGGTTCGAAGAAATCTTCGTCCTTTGATTCGGAATCCGAGTGTTTCATGTGTTGGCTGTGGCATCATGGGTTGCCTCGGCAATAAGGGTTCAGTGTCAGTTAGGTTTCAACTGCATGAAACAAGCTTCTGCTTCGTGTGCTGTCATCTAGCTTCAGGGGGAAGACAAGGAGATGAGAAACTCAGAAACTCGAACGTAGCTGAAATCTTGAACAGAACAAGTTTCCCTAGAGGTCCATTGCTTGATTTGCCACGAAAGATCCCAGACCACCAACGAGTAATCTTCTTGGGAGATTTGAATTACAGAATTTCCCTTCCAGAATCAACCACACGGTCATTAGTGGATAGCAGAGATTGGAATGCCTTACTGAAGAGCGATCAGCTGAGTATGGAGCTCAATAATGGTCAAGTATTTGAAGGTTGGCTTGAAGGAAGTATCAAATTTGCCCCGACTTACAAATATTTTCCAGATTCTGATACATATTATGGATGTCCTCCTCCTGCAAGGAAAGGTGAAAAGAGGCGTGCTCCTGCATGGTGTGATCGGATAATTTGGTATGGAAAAGGGTTGAAGCAACATGTATACGACCGAGGTGAATCAAAATTGTCTGACCACAGGCCAGTGAAGTCAATATTTACCGCCCAAGTTGAAGTTCTACCATCGCTTATGAGAGGATACCAAAGCTTTTTTCTTTCGGACAGGTTTGACAAAATTTCAAGCCAGTTTGACGTACCCTCCACCGACGATCGATTTCTATGTCATCGCAGATCATCAAGCTTCAAAGCTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0004439 GO:0006629 GO:0006644 GO:0006650 GO:0006793 GO:0006796 GO:0006950 GO:0006970 GO:0008150 GO:0008152 GO:0009628 GO:0009651 GO:0009987 GO:0016311 GO:0016787 GO:0016788 GO:0016791 GO:0019222 GO:0019637 GO:0030100 GO:0030258 GO:0031323 GO:0032879 GO:0033554 GO:0034485 GO:0034593 GO:0034594 GO:0034595 GO:0042578 GO:0044237 GO:0044238 GO:0044255 GO:0046486 GO:0046488 GO:0046839 GO:0046856 GO:0048259 GO:0050789 GO:0050794 GO:0050896 GO:0051049 GO:0051128 GO:0051716 GO:0052866 GO:0060627 GO:0065007 GO:0071214 GO:0071470 GO:0071472 GO:0071704 GO:0104004 GO:0106019 GO:2000369 GO:2000377

KEGG Pathways

Metabolic & Signaling

ko00562 ko01100 ko04070 map00562 map01100 map04070

Pfam Domains

Protein Families

Exo_endo_phos

Protein Analysis

456

Amino Acids

51.86

Weight (kDa)

9.11

Isoelectric Point (pI)

42.7

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Exo_endo_phos2	PF22669	85 - 404	3.2e-69	Endonuclease/Exonuclease/phosphatase family 2
Exo_endo_phos	PF03372	85 - 399	3.8e-06	Endonuclease/Exonuclease/phosphatase family

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: OG0012032)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G01900 AT2G01900 AT2G01900
fragaria_vesca	FvH4_4g26100
malus_domestica	MD13G1015800.v1.1 MD16G1013300.v1.1
prunus_persica	Prupe.1G337900_v2.0.a1 Prupe.1G337900_v2.0.a1
pyrus_communis	pycom16g01240
rosa_chinensis	RchiOBHm_Chr4g0433671
rosa_laevigata	RLG00000006740
rosa_multiflora	Rmu_sc0000312.1_g000022
rosa_roxburghii	Rroxscaffold_5G00375110
rosa_rugosa	Rorug04G0270000
rosa_samantha	Rh4AG325000 Rh4BG332700 Rh4CG348000 Rh4DG329400
rosa_wichuraiana	Rw4G028140

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	548
AccI	GTMKAC	1 cut(s)	1164
AciI	CCGC	2 cut(s)	299, 1221
AclWI	GGATC	3 cut(s)	152, 391, 835
AcsI	RAATTY	4 cut(s)	63, 888, 1022, 1293
AcuI	CTGAAG	3 cut(s)	89, 720, 971
AfaI	GTAC	2 cut(s)	253, 1314
AflIII	ACRYGT	1 cut(s)	1159
AjuI	GAANNNNNNNTTGG	6 cut(s)	62, 94, 1218, 1250, 1254, 1286
Alw21I	GWGCWC	2 cut(s)	978, 1111
Alw26I	GTCTC	1 cut(s)	456
AlwI	GGATC	3 cut(s)	152, 391, 835
AlwNI	CAGNNNCTG	1 cut(s)	1055
Ama87I	CYCGRG	1 cut(s)	457
AoxI	GGCC	2 cut(s)	41, 1199
ApeKI	GCWGC	2 cut(s)	136, 507
ApoI	RAATTY	4 cut(s)	63, 888, 1022, 1293
Asp700I	GAANNNNTTC	2 cut(s)	354, 419
AspS9I	GGNCC	1 cut(s)	815
AsuC2I	CCSGG	2 cut(s)	458, 459
AsuHPI	GGTGA	3 cut(s)	206, 1106, 1187
AsuII	TTCGAA	1 cut(s)	589
AvaI	CYCGRG	1 cut(s)	457
AvaII	GGWCC	1 cut(s)	815
BanII	GRGCYC	1 cut(s)	978
BauI	CACGAG	1 cut(s)	279
BbsI	GAAGAC	2 cut(s)	129, 751
Bbv12I	GWGCWC	2 cut(s)	978, 1111
BbvI	GCAGC	2 cut(s)	148, 519
BccI	CCATC	1 cut(s)	1249
BciVI	GTATCC	1 cut(s)	1250
BclI	TGATCA	1 cut(s)	33
BcnI	CCSGG	2 cut(s)	458, 459
BcoDI	GTCTC	1 cut(s)	456
BfaI	CTAG	3 cut(s)	45, 731, 810
BfuI	GTATCC	1 cut(s)	1250
BisI	GCNGC	2 cut(s)	137, 508
BlsI	GCNGC	2 cut(s)	138, 509
Bme1390I	CCNGG	2 cut(s)	458, 459
Bme18I	GGWCC	1 cut(s)	815
BmeT110I	CYCGRG	1 cut(s)	457
BmgT120I	GGNCC	1 cut(s)	815
BmrFI	CCNGG	2 cut(s)	458, 459
BmsI	GCATC	1 cut(s)	654
BpiI	GAAGAC	2 cut(s)	129, 751
BplI	GAGNNNNNCTC	2 cut(s)	1093, 1125
Bpu14I	TTCGAA	1 cut(s)	589
BpuMI	CCSGG	2 cut(s)	458, 459
Bsa29I	ATCGAT	1 cut(s)	1330
BsaJI	CCNNGG	3 cut(s)	457, 658, 1171
BsaXI	ACNNNNNCTCC	4 cut(s)	181, 211, 1301, 1331
Bse1I	ACTGG	3 cut(s)	538, 1202, 1303
Bse3DI	GCAATG	1 cut(s)	818
BseCI	ATCGAT	1 cut(s)	1330
BseDI	CCNNGG	3 cut(s)	457, 658, 1171
BseGI	GGATG	2 cut(s)	317, 1076
BseMI	GCAATG	1 cut(s)	818
BseMII	CTCAG	3 cut(s)	378, 778, 956
BseNI	ACTGG	3 cut(s)	538, 1202, 1303
BseRI	GAGGAG	1 cut(s)	1068
BseXI	GCAGC	2 cut(s)	148, 519
Bsh1285I	CGRYCG	2 cut(s)	1171, 1330
BshFI	GGCC	2 cut(s)	43, 1201
BshVI	ATCGAT	1 cut(s)	1330
BsiEI	CGRYCG	2 cut(s)	1171, 1330
BsiHKAI	GWGCWC	2 cut(s)	978, 1111
BsiHKCI	CYCGRG	1 cut(s)	457
BsiSI	CCGG	1 cut(s)	458
BsmAI	GTCTC	1 cut(s)	456
BsmI	GAATGC	1 cut(s)	946
BsnI	GGCC	2 cut(s)	43, 1201
BsoBI	CYCGRG	1 cut(s)	457
Bsp119I	TTCGAA	1 cut(s)	589
Bsp1286I	GDGCHC	2 cut(s)	978, 1111
Bsp143I	GATC	9 cut(s)	33, 157, 383, 399, 840, 958, 1123, 1327, 1349
BspACI	CCGC	2 cut(s)	299, 1221
BspANI	GGCC	2 cut(s)	43, 1201
BspCNI	CTCAG	3 cut(s)	379, 777, 957
BspDI	ATCGAT	1 cut(s)	1330
BspPI	GGATC	3 cut(s)	152, 391, 835
BspQI	GCTCTTC	1 cut(s)	947
BspT104I	TTCGAA	1 cut(s)	589
BsrDI	GCAATG	1 cut(s)	818
BsrI	ACTGG	3 cut(s)	538, 1202, 1303
BssECI	CCNNGG	3 cut(s)	457, 658, 1171
BssMI	GATC	9 cut(s)	33, 157, 383, 399, 840, 958, 1123, 1327, 1349
BssNAI	GTATAC	1 cut(s)	1165
BssSI	CACGAG	1 cut(s)	279
Bst1107I	GTATAC	1 cut(s)	1165
Bst2BI	CACGAG	1 cut(s)	279
Bst4CI	ACNGT	3 cut(s)	171, 580, 915
Bst6I	CTCTTC	1 cut(s)	947
BstBI	TTCGAA	1 cut(s)	589
BstC8I	GCNNGC	1 cut(s)	1107
BstDEI	CTNAG	3 cut(s)	387, 764, 965
BstF5I	GGATG	2 cut(s)	317, 1076
BstKTI	GATC	9 cut(s)	36, 160, 386, 402, 843, 961, 1126, 1330, 1352
BstMAI	GTCTC	1 cut(s)	456
BstMBI	GATC	9 cut(s)	33, 157, 383, 399, 840, 958, 1123, 1327, 1349
BstMCI	CGRYCG	2 cut(s)	1171, 1330
BstMWI	GCNNNNNNNGC	2 cut(s)	720, 829
BstNSI	RCATGY	1 cut(s)	1163
BstSCI	CCNGG	2 cut(s)	456, 457
BstV1I	GCAGC	2 cut(s)	148, 519
BstV2I	GAAGAC	2 cut(s)	129, 751
BstX2I	RGATCY	2 cut(s)	383, 840
BstYI	RGATCY	2 cut(s)	383, 840
BstZ17I	GTATAC	1 cut(s)	1165
Bsu15I	ATCGAT	1 cut(s)	1330
BsuI	GTATCC	1 cut(s)	1250
BsuRI	GGCC	2 cut(s)	43, 1201
BsuTUI	ATCGAT	1 cut(s)	1330
BtgZI	GCGATG	2 cut(s)	1227, 1328
BtsCI	GGATG	2 cut(s)	317, 1076
BtsIMutI	CAGTG	3 cut(s)	545, 681, 1209
Cac8I	GCNNGC	1 cut(s)	1107
CaiI	CAGNNNCTG	1 cut(s)	1055
Cfr13I	GGNCC	1 cut(s)	815
Cfr9I	CCCGGG	1 cut(s)	457
ClaI	ATCGAT	1 cut(s)	1330
Csp6I	GTAC	2 cut(s)	252, 1313
CspCI	CAANNNNNGTGG	2 cut(s)	480, 515
CviAII	CATG	9 cut(s)	37, 255, 295, 406, 630, 649, 698, 1116, 1160
CviQI	GTAC	2 cut(s)	252, 1313
DdeI	CTNAG	3 cut(s)	387, 764, 965
DpnI	GATC	9 cut(s)	35, 159, 385, 401, 842, 960, 1125, 1329, 1351
DpnII	GATC	9 cut(s)	33, 157, 383, 399, 840, 958, 1123, 1327, 1349
Eam1104I	CTCTTC	1 cut(s)	947
EarI	CTCTTC	1 cut(s)	947
EciI	GGCGGA	1 cut(s)	314
Ecl136II	GAGCTC	1 cut(s)	976
Eco24I	GRGCYC	1 cut(s)	978
Eco47I	GGWCC	1 cut(s)	815
Eco53kI	GAGCTC	1 cut(s)	976
Eco57I	CTGAAG	3 cut(s)	89, 720, 971
Eco88I	CYCGRG	1 cut(s)	457
EcoICRI	GAGCTC	1 cut(s)	976
EcoT38I	GRGCYC	1 cut(s)	978
FaeI	CATG	9 cut(s)	40, 258, 298, 409, 633, 652, 701, 1119, 1163
FalI	AAGNNNNNCTT	2 cut(s)	990, 1022
FatI	CATG	9 cut(s)	36, 254, 294, 405, 629, 648, 697, 1115, 1159
FbaI	TGATCA	1 cut(s)	33
FblI	GTMKAC	1 cut(s)	1164
Fnu4HI	GCNGC	2 cut(s)	137, 508
FokI	GGATG	2 cut(s)	304, 1083
FriOI	GRGCYC	1 cut(s)	978
Fsp4HI	GCNGC	2 cut(s)	137, 508
FspBI	CTAG	3 cut(s)	45, 731, 810
GluI	GCNGC	2 cut(s)	137, 508
HaeIII	GGCC	2 cut(s)	43, 1201
HapII	CCGG	1 cut(s)	458
Hin1II	CATG	9 cut(s)	40, 258, 298, 409, 633, 652, 701, 1119, 1163
HincII	GTYRAC	1 cut(s)	492
HindII	GTYRAC	1 cut(s)	492
HindIII	AAGCTT	5 cut(s)	151, 706, 1264, 1357, 1365
HinfI	GANTC	8 cut(s)	125, 211, 521, 610, 616, 902, 1052, 1178
HpaII	CCGG	1 cut(s)	458
HphI	GGTGA	3 cut(s)	206, 1106, 1187
Hpy166II	GTNNAC	2 cut(s)	492, 1165
Hpy188III	TCNNGA	6 cut(s)	161, 208, 347, 790, 899, 1049
Hpy8I	GTNNAC	2 cut(s)	492, 1165
Hpy99I	CGWCG	2 cut(s)	190, 1328
HpyAV	CCTTC	4 cut(s)	430, 905, 992, 1004
HpyCH4III	ACNGT	3 cut(s)	171, 580, 915
HpyCH4IV	ACGT	2 cut(s)	777, 1311
HpyCH4V	TGCA	7 cut(s)	8, 14, 136, 405, 697, 1085, 1115
HpyF10VI	GCNNNNNNNGC	2 cut(s)	720, 829
HpyF3I	CTNAG	3 cut(s)	387, 764, 965
HpySE526I	ACGT	2 cut(s)	777, 1311
Hsp92II	CATG	9 cut(s)	40, 258, 298, 409, 633, 652, 701, 1119, 1163
Ksp22I	TGATCA	1 cut(s)	33
Kzo9I	GATC	9 cut(s)	33, 157, 383, 399, 840, 958, 1123, 1327, 1349
LguI	GCTCTTC	1 cut(s)	947
LmnI	GCTCC	3 cut(s)	202, 973, 1114
Lsp1109I	GCAGC	2 cut(s)	148, 519
LweI	GCATC	1 cut(s)	654
MaeI	CTAG	3 cut(s)	45, 731, 810
MaeII	ACGT	2 cut(s)	777, 1311
MaeIII	GTNAC	1 cut(s)	323
MalI	GATC	9 cut(s)	35, 159, 385, 401, 842, 960, 1125, 1329, 1351
MboI	GATC	9 cut(s)	33, 157, 383, 399, 840, 958, 1123, 1327, 1349
MboII	GAAGA	7 cut(s)	82, 134, 590, 603, 756, 856, 964
MflI	RGATCY	2 cut(s)	383, 840
MhlI	GDGCHC	2 cut(s)	978, 1111
MlyI	GAGTC	1 cut(s)	119
MroXI	GAANNNNTTC	2 cut(s)	354, 419
MspA1I	CMGCKG	2 cut(s)	139, 964
MspI	CCGG	1 cut(s)	458
MspR9I	CCNGG	2 cut(s)	458, 459
Mva1269I	GAATGC	1 cut(s)	946
MwoI	GCNNNNNNNGC	2 cut(s)	720, 829
NciI	CCSGG	2 cut(s)	458, 459
NdeII	GATC	9 cut(s)	33, 157, 383, 399, 840, 958, 1123, 1327, 1349
NlaIII	CATG	9 cut(s)	40, 258, 298, 409, 633, 652, 701, 1119, 1163
NmeAIII	GCCGAG	1 cut(s)	639
NmuCI	GTSAC	1 cut(s)	323
NspI	RCATGY	1 cut(s)	1163
NspV	TTCGAA	1 cut(s)	589
PciI	ACATGT	1 cut(s)	1159
PciSI	GCTCTTC	1 cut(s)	947
PctI	GAATGC	1 cut(s)	946
PdmI	GAANNNNTTC	2 cut(s)	354, 419
PfeI	GAWTC	7 cut(s)	211, 521, 610, 616, 902, 1052, 1178
PkrI	GCNGC	2 cut(s)	138, 509
Ple19I	CGATCG	1 cut(s)	1330
PleI	GAGTC	1 cut(s)	119
PpsI	GAGTC	1 cut(s)	119
PscI	ACATGT	1 cut(s)	1159
PsiI	TTATAA	1 cut(s)	548
Psp124BI	GAGCTC	1 cut(s)	978
PspPI	GGNCC	1 cut(s)	815
PstNI	CAGNNNCTG	1 cut(s)	1055
PsuI	RGATCY	2 cut(s)	383, 840
PvuI	CGATCG	1 cut(s)	1330
PvuII	CAGCTG	2 cut(s)	139, 964
RsaI	GTAC	2 cut(s)	253, 1314
RsaNI	GTAC	2 cut(s)	252, 1313
SacI	GAGCTC	1 cut(s)	978
SapI	GCTCTTC	1 cut(s)	947
SatI	GCNGC	2 cut(s)	137, 508
Sau3AI	GATC	9 cut(s)	33, 157, 383, 399, 840, 958, 1123, 1327, 1349
Sau96I	GGNCC	1 cut(s)	815
SchI	GAGTC	1 cut(s)	119
ScrFI	CCNGG	2 cut(s)	458, 459
SduI	GDGCHC	2 cut(s)	978, 1111
SfaNI	GCATC	1 cut(s)	654
SfuI	TTCGAA	1 cut(s)	589
SinI	GGWCC	1 cut(s)	815
SmaI	CCCGGG	1 cut(s)	459
SsiI	CCGC	2 cut(s)	299, 1221
SspI	AATATT	2 cut(s)	1043, 1215
SspMI	CTAG	3 cut(s)	45, 731, 810
SstI	GAGCTC	1 cut(s)	978
StyD4I	CCNGG	2 cut(s)	456, 457
TaaI	ACNGT	3 cut(s)	171, 580, 915
TaiI	ACGT	2 cut(s)	780, 1314
TaqI	TCGA	3 cut(s)	589, 773, 1330
TaqII	GACCGA	1 cut(s)	1185
TatI	WGTACW	1 cut(s)	251
TfiI	GAWTC	7 cut(s)	211, 521, 610, 616, 902, 1052, 1178
TscAI	CASTG	3 cut(s)	545, 681, 1209
TseFI	GTSAC	1 cut(s)	323
TseI	GCWGC	2 cut(s)	136, 507
Tsp45I	GTSAC	1 cut(s)	323
TspDTI	ATGAA	5 cut(s)	305, 412, 422, 618, 714
TspMI	CCCGGG	1 cut(s)	457
TspRI	CASTG	3 cut(s)	545, 681, 1209
VpaK11BI	GGWCC	1 cut(s)	815
XapI	RAATTY	4 cut(s)	63, 888, 1022, 1293
XceI	RCATGY	1 cut(s)	1163
XcmI	CCANNNNNNNNNTGG	1 cut(s)	136
XmaI	CCCGGG	1 cut(s)	457
XmiI	GTMKAC	1 cut(s)	1164
XmnI	GAANNNNTTC	2 cut(s)	354, 419
XspI	CTAG	3 cut(s)	45, 731, 810

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