Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000002

Orthogroup ID

OG0001340

Physical Location & Seq

Genomic Coordinates Forward (+)

55510281 .. 55514390

Gene Structure 4110 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug02G0433700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1224 bp

ATGTTTGGTGTTTACTGTAAAAGATTGCAATTACTAGTTCCAACTTCAGTTACCCATTTTCATTGCTTTCAAAAGTTCCTTCCTTGTAGCAGATCATATTCATCTTTATTAGGATCTGATATAGATGATGATGATGATGATAAATCCCAAGGTCACTCTTTTACAGTTTCATACCTCATAAACTCATTTGGGTTTTCCCCAAAACTGGCTCTCTCTTTGTCCAAGAAGCATAGGGTACGGTTTGATTCCCCAGAAAAACCAGACTCAGTTGTTAAGCTTCTCAAACACCATGGATTCAATGGTACCCAGATATCCGAAATTGTTAAGAAACTACCAACCTTGCTTTTGTGCAATGCTGAGAAGACCCTTGAGCCCAAGCTCCAGTTTTTCGATTCTGTTGGCCTTTCAGCCACCACCCTTGCTTGGGTCGTCAGTTACAACCAACGCATTTTGGGTCAAAGCTTAGAGAGAAGTCTCCGACCGTGCTATGATATCATCAAAAGTCTACCTATCCCCCACAACATGGTGGCTGTTTTCTTGAAGAACTCGAACCGGGCATTTGGGGTCAAAATGCTTAGCAATCTTGTGCCCAATGTTTCAGTTCTTAGGGCAATTCAAGTGCCGGAATCCTGCATCTCCTTTTACGTTACCTATCATCCTCTTGTGCTGTCCCCTGAAACTGGCAAGTTTAAGGAAAGTGTAAACAAGATCATTAATCTCGGAATTCTGCCTCCGAGTTTTACTTTCATGAAGGCACTACAAGTCATCTCTCAGATGGATGCATCAAAGTGGAGACGAAAGACAGAGTTCTATAGGAAGTGTGGTTGGACTGAGGATGACTTTCTGTTGGCATTTAGAAAGAATCCCATGTTTATGAGCTTGTCAGAGGAGAAGTGTTCAAGTAAAATTGAGTTTCTTGTGAACAAAATGGGTTGGCAGCCTGCAGAAGTGGCTGACAGGCCGGATATTCTAACTCATAGTTTGGAGAAGTCTATCATACCTAGGTGTTCAGTTATTAGAGTTCTCCAATATAAGGGTTTGATGAAAAAGGGAGAACTTTCTCAAGCTACCATGCTGATAAACAGTAGGAAGCGCTTCTTGGATAGGTTTGTGACCAAATATAAGGATCAAGCACCTGAACTGTTGAGTATCTTTCAAGGGCAAATGTCTCTAGCAGAATTGGGTGTAGGATTTGAGGAAAGAGATGGAGTGAAACAATTGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Retrotran_gag_2 gag_pre-integrs

Protein Analysis

407

Amino Acids

46.33

Weight (kDa)

9.38

Isoelectric Point (pI)

44.99

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
mTERF	PF02536	91 - 223	3.4e-18	mTERF
mTERF	PF02536	220 - 367	1.3e-18	mTERF

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

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0001340)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_5g05651 FvH4_5g06481
malus_domestica	MD04G1150100.v1.1
rosa_chinensis	RchiOBHm_Chr1g0366871 RchiOBHm_Chr2g0112811 RchiOBHm_Chr5g0022021 RchiOBHm_Chr5g0050161 RchiOBHm_Chr7g0178931
rosa_laevigata	RLG00000030270 RLG00000030274 RLG00000030285 RLG00000030289
rosa_multiflora	Rmu_sc0000206.1_g000011 Rmu_sc0000539.1_g000041 Rmu_sc0001706.1_g000020 Rmu_sc0002245.1_g000029 Rmu_sc0002935.1_g000016 Rmu_sc0002952.1_g000016 Rmu_sc0002952.1_g000017 Rmu_sc0003371.1_g000005 Rmu_sc0004193.1_g000005 Rmu_sc0004359.1_g000018 Rmu_sc0006422.1_g000014 Rmu_sc0007594.1_g000001 Rmu_sc0010925.1_g000018 Rmu_sc0013146.1_g000003 Rmu_sc0031630.1_g000002 Rmu_sc0033466.1_g000001 Rmu_ssc0000079.1_g000006 Rmu_ssc0000423.1_g000006
rosa_roxburghii	Rroxscaffold_1G00004520 Rroxscaffold_1G00005520 Rroxscaffold_1G00041540 Rroxscaffold_1G00045310 Rroxscaffold_5G00361650 Rroxscaffold_6G00388920 Rroxscaffold_6G00405980 Rroxscaffold_6G00410140 Rroxscaffold_6G00423840 Rroxscaffold_7G00200050
rosa_rugosa	Rorug02G0433500 Rorug02G0433600 Rorug02G0433600 Rorug02G0433700 Rorug04G0166100.1 Rorug05G0053500 Rorug06G0481300
rosa_samantha	Rh1CG036200 Rh4AG051700 Rh4BG049000 Rh4CG055700
rosa_wichuraiana	Rw0G022690 Rw1G035930 Rw4G004120

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc65I	GGTACC	1 cut(s)	302
AccB1I	GGYRCC	1 cut(s)	302
AccB7I	CCANNNNNTGG	1 cut(s)	523
AccI	GTMKAC	1 cut(s)	505
AclWI	GGATC	2 cut(s)	121, 1134
AcsI	RAATTY	1 cut(s)	723
AcuI	CTGAAG	1 cut(s)	30
AfaI	GTAC	2 cut(s)	237, 304
AfeI	AGCGCT	1 cut(s)	1094
AfiI	CCNNNNNNNGG	6 cut(s)	205, 423, 424, 523, 680, 1033
AgsI	TTSAA	6 cut(s)	71, 298, 541, 617, 900, 1157
AhlI	ACTAGT	1 cut(s)	34
AjuI	GAANNNNNNNTTGG	2 cut(s)	1082, 1114
AluBI	AGCT	5 cut(s)	277, 379, 462, 879, 1067
AluI	AGCT	5 cut(s)	277, 379, 462, 879, 1067
Alw26I	GTCTC	3 cut(s)	479, 787, 1173
AlwI	GGATC	2 cut(s)	121, 1134
Aor51HI	AGCGCT	1 cut(s)	1094
AoxI	GGCC	2 cut(s)	400, 959
ApeKI	GCWGC	1 cut(s)	937
ApoI	RAATTY	1 cut(s)	723
AseI	ATTAAT	1 cut(s)	714
Asp700I	GAANNNNTTC	1 cut(s)	1094
Asp718I	GGTACC	1 cut(s)	302
AspA2I	CCTAGG	1 cut(s)	1001
AspLEI	GCGC	1 cut(s)	1095
AsuC2I	CCSGG	1 cut(s)	554
AvrII	CCTAGG	1 cut(s)	1001
BaeGI	GKGCMC	1 cut(s)	591
BanI	GGYRCC	1 cut(s)	302
BanII	GRGCYC	1 cut(s)	375
BbsI	GAAGAC	1 cut(s)	368
BbvI	GCAGC	1 cut(s)	949
BccI	CCATC	2 cut(s)	769, 1199
BcnI	CCSGG	1 cut(s)	554
BcoDI	GTCTC	3 cut(s)	479, 787, 1173
BcuI	ACTAGT	1 cut(s)	34
BfaI	CTAG	3 cut(s)	35, 1002, 1172
BfmI	CTRYAG	2 cut(s)	811, 942
BfoI	RGCGCY	1 cut(s)	1096
BisI	GCNGC	1 cut(s)	938
BlnI	CCTAGG	1 cut(s)	1001
BlpI	GCTNAGC	1 cut(s)	575
BlsI	GCNGC	1 cut(s)	939
Bme1390I	CCNGG	1 cut(s)	554
BmiI	GGNNCC	1 cut(s)	304
BmrFI	CCNGG	1 cut(s)	554
BmsI	GCATC	3 cut(s)	642, 769, 791
BpiI	GAAGAC	1 cut(s)	368
BpmI	CTGGAG	1 cut(s)	365
Bpu1102I	GCTNAGC	1 cut(s)	575
BpuEI	CTTGAG	2 cut(s)	389, 1047
BpuMI	CCSGG	1 cut(s)	554
BsaJI	CCNNGG	3 cut(s)	148, 289, 1001
Bsc4I	CCNNNNNNNGG	6 cut(s)	205, 423, 424, 523, 680, 1033
Bse1I	ACTGG	3 cut(s)	210, 382, 685
Bse3DI	GCAATG	2 cut(s)	61, 358
BseDI	CCNNGG	3 cut(s)	148, 289, 1001
BseGI	GGATG	3 cut(s)	655, 784, 841
BseLI	CCNNNNNNNGG	6 cut(s)	205, 423, 424, 523, 680, 1033
BseMI	GCAATG	2 cut(s)	61, 358
BseMII	CTCAG	4 cut(s)	279, 348, 785, 822
BseNI	ACTGG	3 cut(s)	210, 382, 685
BseRI	GAGGAG	1 cut(s)	902
BseSI	GKGCMC	1 cut(s)	591
BseXI	GCAGC	1 cut(s)	949
Bsh1285I	CGRYCG	1 cut(s)	482
BshFI	GGCC	2 cut(s)	402, 961
BshNI	GGYRCC	1 cut(s)	302
BsiEI	CGRYCG	1 cut(s)	482
BsiSI	CCGG	3 cut(s)	553, 623, 962
BslFI	GGGAC	1 cut(s)	655
BslI	CCNNNNNNNGG	6 cut(s)	205, 423, 424, 523, 680, 1033
BsmAI	GTCTC	3 cut(s)	479, 787, 1173
BsmBI	CGTCTC	1 cut(s)	787
BsmFI	GGGAC	1 cut(s)	655
BsnI	GGCC	2 cut(s)	402, 961
Bsp1286I	GDGCHC	2 cut(s)	375, 591
Bsp143I	GATC	4 cut(s)	92, 113, 708, 1126
Bsp1720I	GCTNAGC	1 cut(s)	575
Bsp19I	CCATGG	1 cut(s)	289
BspANI	GGCC	2 cut(s)	402, 961
BspCNI	CTCAG	4 cut(s)	278, 349, 784, 823
BspHI	TCATGA	1 cut(s)	747
BspLI	GGNNCC	1 cut(s)	304
BspMAI	CTGCAG	1 cut(s)	946
BspPI	GGATC	2 cut(s)	121, 1134
BspT107I	GGYRCC	1 cut(s)	302
BsrDI	GCAATG	2 cut(s)	61, 358
BsrI	ACTGG	3 cut(s)	210, 382, 685
BssECI	CCNNGG	3 cut(s)	148, 289, 1001
BssMI	GATC	4 cut(s)	92, 113, 708, 1126
BssT1I	CCWWGG	3 cut(s)	148, 289, 1001
Bst4CI	ACNGT	6 cut(s)	17, 166, 240, 483, 1085, 1143
BstC8I	GCNNGC	1 cut(s)	942
BstDEI	CTNAG	7 cut(s)	265, 357, 463, 575, 605, 771, 831
BstDSI	CCRYGG	1 cut(s)	289
BstF5I	GGATG	3 cut(s)	655, 784, 841
BstH2I	RGCGCY	1 cut(s)	1096
BstHHI	GCGC	1 cut(s)	1095
BstKTI	GATC	4 cut(s)	95, 116, 711, 1129
BstMAI	GTCTC	3 cut(s)	479, 787, 1173
BstMBI	GATC	4 cut(s)	92, 113, 708, 1126
BstMCI	CGRYCG	1 cut(s)	482
BstMWI	GCNNNNNNNGC	1 cut(s)	950
BstSCI	CCNGG	1 cut(s)	552
BstSFI	CTRYAG	2 cut(s)	811, 942
BstSLI	GKGCMC	1 cut(s)	591
BstV1I	GCAGC	1 cut(s)	949
BstV2I	GAAGAC	1 cut(s)	368
BstX2I	RGATCY	1 cut(s)	113
BstYI	RGATCY	1 cut(s)	113
BsuRI	GGCC	2 cut(s)	402, 961
BtgI	CCRYGG	1 cut(s)	289
BtsCI	GGATG	3 cut(s)	655, 784, 841
Cac8I	GCNNGC	1 cut(s)	942
CciI	TCATGA	1 cut(s)	747
CfoI	GCGC	1 cut(s)	1095
Csp6I	GTAC	2 cut(s)	236, 303
CspCI	CAANNNNNGTGG	2 cut(s)	400, 435
CviAII	CATG	5 cut(s)	290, 523, 748, 868, 1072
CviQI	GTAC	2 cut(s)	236, 303
DdeI	CTNAG	7 cut(s)	265, 357, 463, 575, 605, 771, 831
DpnI	GATC	4 cut(s)	94, 115, 710, 1128
DpnII	GATC	4 cut(s)	92, 113, 708, 1126
Eco130I	CCWWGG	3 cut(s)	148, 289, 1001
Eco24I	GRGCYC	1 cut(s)	375
Eco32I	GATATC	2 cut(s)	312, 493
Eco47III	AGCGCT	1 cut(s)	1094
Eco57I	CTGAAG	1 cut(s)	30
EcoRI	GAATTC	1 cut(s)	723
EcoRV	GATATC	2 cut(s)	312, 493
EcoT14I	CCWWGG	3 cut(s)	148, 289, 1001
EcoT22I	ATGCAT	1 cut(s)	784
EcoT38I	GRGCYC	1 cut(s)	375
ErhI	CCWWGG	3 cut(s)	148, 289, 1001
Esp3I	CGTCTC	1 cut(s)	787
FaeI	CATG	5 cut(s)	293, 526, 751, 871, 1075
FalI	AAGNNNNNCTT	2 cut(s)	1082, 1114
FaqI	GGGAC	1 cut(s)	655
FatI	CATG	5 cut(s)	289, 522, 747, 867, 1071
FblI	GTMKAC	1 cut(s)	505
Fnu4HI	GCNGC	1 cut(s)	938
FokI	GGATG	3 cut(s)	642, 791, 848
FriOI	GRGCYC	1 cut(s)	375
Fsp4HI	GCNGC	1 cut(s)	938
FspBI	CTAG	3 cut(s)	35, 1002, 1172
GlaI	GCGC	1 cut(s)	1094
GluI	GCNGC	1 cut(s)	938
GsuI	CTGGAG	1 cut(s)	365
HaeII	RGCGCY	1 cut(s)	1096
HaeIII	GGCC	2 cut(s)	402, 961
HapII	CCGG	3 cut(s)	553, 623, 962
HhaI	GCGC	1 cut(s)	1095
Hin1II	CATG	5 cut(s)	293, 526, 751, 871, 1075
Hin6I	GCGC	1 cut(s)	1093
HinP1I	GCGC	1 cut(s)	1093
HindIII	AAGCTT	2 cut(s)	275, 460
HinfI	GANTC	6 cut(s)	245, 263, 294, 392, 626, 862
HpaII	CCGG	3 cut(s)	553, 623, 962
Hpy166II	GTNNAC	4 cut(s)	13, 506, 703, 922
Hpy188I	TCNGA	7 cut(s)	118, 316, 479, 722, 735, 774, 886
Hpy188III	TCNNGA	2 cut(s)	538, 748
Hpy8I	GTNNAC	4 cut(s)	13, 506, 703, 922
HpyAV	CCTTC	2 cut(s)	89, 745
HpyCH4III	ACNGT	6 cut(s)	17, 166, 240, 483, 1085, 1143
HpyCH4IV	ACGT	1 cut(s)	645
HpyCH4V	TGCA	5 cut(s)	28, 351, 633, 782, 944
HpyF10VI	GCNNNNNNNGC	1 cut(s)	950
HpyF3I	CTNAG	7 cut(s)	265, 357, 463, 575, 605, 771, 831
HpySE526I	ACGT	1 cut(s)	645
Hsp92II	CATG	5 cut(s)	293, 526, 751, 871, 1075
HspAI	GCGC	1 cut(s)	1093
KpnI	GGTACC	1 cut(s)	306
Kzo9I	GATC	4 cut(s)	92, 113, 708, 1126
LmnI	GCTCC	1 cut(s)	384
Lsp1109I	GCAGC	1 cut(s)	949
LweI	GCATC	3 cut(s)	642, 769, 791
MaeI	CTAG	3 cut(s)	35, 1002, 1172
MaeII	ACGT	1 cut(s)	645
MaeIII	GTNAC	5 cut(s)	49, 152, 434, 646, 1111
MalI	GATC	4 cut(s)	94, 115, 710, 1128
MboI	GATC	4 cut(s)	92, 113, 708, 1126
MboII	GAAGA	2 cut(s)	373, 553
MfeI	CAATTG	1 cut(s)	1217
MflI	RGATCY	1 cut(s)	113
MhlI	GDGCHC	2 cut(s)	375, 591
MluCI	AATT	7 cut(s)	29, 318, 612, 723, 906, 1178, 1217
MlyI	GAGTC	1 cut(s)	257
MmeI	TCCRAC	3 cut(s)	65, 502, 806
MnlI	CCTC	6 cut(s)	185, 669, 741, 826, 880, 1189
Mph1103I	ATGCAT	1 cut(s)	784
MroXI	GAANNNNTTC	1 cut(s)	1094
MseI	TTAA	4 cut(s)	273, 324, 690, 714
MslI	CAYNNNNRTG	2 cut(s)	787, 872
MspI	CCGG	3 cut(s)	553, 623, 962
MspR9I	CCNGG	1 cut(s)	554
MunI	CAATTG	1 cut(s)	1217
MwoI	GCNNNNNNNGC	1 cut(s)	950
NciI	CCSGG	1 cut(s)	554
NcoI	CCATGG	1 cut(s)	289
NdeII	GATC	4 cut(s)	92, 113, 708, 1126
NlaIII	CATG	5 cut(s)	293, 526, 751, 871, 1075
NlaIV	GGNNCC	1 cut(s)	304
NmuCI	GTSAC	2 cut(s)	152, 1111
NsiI	ATGCAT	1 cut(s)	784
PagI	TCATGA	1 cut(s)	747
PdmI	GAANNNNTTC	1 cut(s)	1094
PfeI	GAWTC	5 cut(s)	245, 294, 392, 626, 862
PflMI	CCANNNNNTGG	1 cut(s)	523
PkrI	GCNGC	1 cut(s)	939
PleI	GAGTC	1 cut(s)	257
PpsI	GAGTC	1 cut(s)	257
PshBI	ATTAAT	1 cut(s)	714
PspN4I	GGNNCC	1 cut(s)	304
PstI	CTGCAG	1 cut(s)	946
PsuI	RGATCY	1 cut(s)	113
RsaI	GTAC	2 cut(s)	237, 304
RsaNI	GTAC	2 cut(s)	236, 303
RseI	CAYNNNNRTG	2 cut(s)	787, 872
SaqAI	TTAA	4 cut(s)	273, 324, 690, 714
SatI	GCNGC	1 cut(s)	938
Sau3AI	GATC	4 cut(s)	92, 113, 708, 1126
SchI	GAGTC	1 cut(s)	257
ScrFI	CCNGG	1 cut(s)	554
SduI	GDGCHC	2 cut(s)	375, 591
SfaNI	GCATC	3 cut(s)	642, 769, 791
SfcI	CTRYAG	2 cut(s)	811, 942
SmiMI	CAYNNNNRTG	2 cut(s)	787, 872
SmlI	CTYRAG	2 cut(s)	368, 1062
SmoI	CTYRAG	2 cut(s)	368, 1062
SpeI	ACTAGT	1 cut(s)	34
Sse9I	AATT	7 cut(s)	29, 318, 612, 723, 906, 1178, 1217
SspMI	CTAG	3 cut(s)	35, 1002, 1172
StyD4I	CCNGG	1 cut(s)	552
StyI	CCWWGG	3 cut(s)	148, 289, 1001
TaaI	ACNGT	6 cut(s)	17, 166, 240, 483, 1085, 1143
TaiI	ACGT	1 cut(s)	648
TaqI	TCGA	2 cut(s)	390, 548
TasI	AATT	7 cut(s)	29, 318, 612, 723, 906, 1178, 1217
TfiI	GAWTC	5 cut(s)	245, 294, 392, 626, 862
Tru1I	TTAA	4 cut(s)	273, 324, 690, 714
Tru9I	TTAA	4 cut(s)	273, 324, 690, 714
TseFI	GTSAC	2 cut(s)	152, 1111
TseI	GCWGC	1 cut(s)	937
Tsp45I	GTSAC	2 cut(s)	152, 1111
TspDTI	ATGAA	6 cut(s)	50, 90, 159, 736, 764, 1058
Van91I	CCANNNNNTGG	1 cut(s)	523
VspI	ATTAAT	1 cut(s)	714
XapI	RAATTY	1 cut(s)	723
XcmI	CCANNNNNNNNNTGG	1 cut(s)	296
XmaJI	CCTAGG	1 cut(s)	1001
XmiI	GTMKAC	1 cut(s)	505
XmnI	GAANNNNTTC	1 cut(s)	1094
XspI	CTAG	3 cut(s)	35, 1002, 1172
Zsp2I	ATGCAT	1 cut(s)	784

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