Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000004

Orthogroup ID

OG0002892

Physical Location & Seq

Genomic Coordinates Reverse (-)

56733436 .. 56734758

Gene Structure 1323 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug04G0402900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1323 bp

ATGATTTTATTGAGGGGACTTAGATGGCAAGTGGGCGATGGTTCTTCTATTCGGATTTGGGAAGATCCTTGGATACCTAGGCCTTCTCTTTTCAAGCCTTTATTCCGGCAGAATACTTCCTCGACATGGGTTAGTGAGTTGATTACATCCTCTTGTTGGAATGTTGATATTGTGAATAATTTATTTGATCCGGTAGATGCGGAGTTGATTTTAGCTATTCCTTTGAGCTCGAGAACTGTTTCTGATAGACTTGTGTGGCATTTCGATGCTAAAGCTCTTTTCACTAGAAAATCAGCTTATCTTCAGGCTTTTGAATGGATTCATGCTCCAACTTCAACCTCAGGTGCTGGGGGCGTGTCTGGATTGTGGAAAGGTATTTGGACAGCCAAGGTTCCTGGAAAGATTAAAGTTCATGCTTGGAGAGTTTGTTCCTTCATTCTTCCTACTATTTCTCAACTCCGTAAAAAGCATGTGTTTATTGATGATGGTTGTTACCTATGCAATTGTGATGTTGAAACAACTGAGCATGTTAGTAGAGATTGTCCTTTTGTCAAGGATACTCTAAGCATGTGCCCAGGGCTAGAAAGAATTTTCACTAATCAATCAGGAGTTTCGTGCTTGGATTGGTTGGAATCTTGCTTTGGTTTGCTAACAAAGGAGTCATTCTCCTTGCTGTTATGGGGAATTTGGTCTATTTGGAAGGAAAGAAATAGGAGGGTTTGGCAAGGAAAGCTATCCTCTCCTGGACATGTGAGGCATCTTTTTTCCTCCCAACATATTATTTATAAACATATGGAGTGGCCTCAACAACGTACTGTAGGTAGGATAGCTAGGCCATGGACTACTCCTCCAATTGGGTGGCTTAAGGCTAACCTTGATGCTGCTTTTGATTTGCAATCTCGCTGTGGTGGTCTTGGTGTGATCATTAGGGATTCTGCAGGTTTGATAGTGGGTGGTTGCTGTAAGAAGGTTTCTAATGTTACTTTTCCAATTATGGCGGAAGCATTTGCTGCTAGGTTGGCTTGTCAGTTTGCAGTTAGTCACAATTTGGCTCCTATTATTTTTGAGTCTGATTGCCAGAAATTGGTCAAGGATACTACGTCAAATGAGGAGGATGATTCAGGTTATGGGAGGATTGTGGACGATGTTTCTTTTCTACTAGCTTCTTTGCCAGGGTCTTATCTTACTCATGTATATCGAGAGTCTAATTCTGCAGCTCTTATGCTTGCTAAGTTAGCTCTCCATTCAAGTTTTGATCTATCTTGGAGTGGTTTGATTCCACCCATTCTTAGCAACTATGTTGCTATCCATTGTATGAACTAA

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

MatE

Protein Analysis

440

Amino Acids

49.38

Weight (kDa)

8.45

Isoelectric Point (pI)

39.42

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-RVT	PF13966	121 - 185	2.3e-13	zinc-binding in reverse transcriptase
RVT_3	PF13456	291 - 413	5.4e-22	Reverse transcriptase-like

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: OG0002892)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G11670 AT1G61890 AT1G61890 AT1G61890
fragaria_vesca	FvH4_3g02260 FvH4_3g02260
malus_domestica	MD05G1344300.v1.1 MD10G1320300.v1.1
prunus_persica	Prupe.4G022000_v2.0.a1 Prupe.4G022000_v2.0.a1 Prupe.4G022000_v2.0.a1 Prupe.4G022000_v2.0.a1 Prupe.4G022000_v2.0.a1 Prupe.4G022100_v2.0.a1 Prupe.4G022100_v2.0.a1
pyrus_communis	pycom05g31370 pycom10g27100
rosa_chinensis	RchiOBHm_Chr5g0003331 RchiOBHm_Chr5g0003381
rosa_laevigata	RLG00000031125 RLG00000031127 RLG00000031131 RLG00000031134
rosa_multiflora	Rmu_sc0006842.1_g000003 Rmu_sc0006842.1_g000010 Rmu_sc0010917.1_g000002 Rmu_sc0010917.1_g000004
rosa_roxburghii	Rroxscaffold_1G00072640
rosa_rugosa	Rorug04G0402900
rosa_samantha	Rh5AG028900 Rh5AG029500 Rh5BG029000 Rh5DG029500
rosa_wichuraiana	Rw0G014030 Rw0G015590 Rw5G002690 Rw5G002740 Rw5G002760

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	786
Acc36I	ACCTGC	1 cut(s)	929
AccB7I	CCANNNNNTGG	1 cut(s)	1084
AciI	CCGC	2 cut(s)	200, 998
AclWI	GGATC	2 cut(s)	59, 182
AcsI	RAATTY	2 cut(s)	588, 684
AcuI	CTGAAG	1 cut(s)	287
AfaI	GTAC	1 cut(s)	814
AfiI	CCNNNNNNNGG	4 cut(s)	126, 156, 854, 1084
AflII	CTTAAG	1 cut(s)	863
AflIII	ACRYGT	1 cut(s)	748
AgsI	TTSAA	5 cut(s)	94, 314, 336, 515, 1248
AjnI	CCWGG	4 cut(s)	394, 574, 742, 1171
AjuI	GAANNNNNNNTTGG	2 cut(s)	624, 656
AloI	GAACNNNNNNTCC	2 cut(s)	412, 444
AluBI	AGCT	9 cut(s)	215, 228, 275, 296, 733, 830, 1163, 1217, 1238
AluI	AGCT	9 cut(s)	215, 228, 275, 296, 733, 830, 1163, 1217, 1238
Alw21I	GWGCWC	1 cut(s)	230
AlwI	GGATC	2 cut(s)	59, 182
AlwNI	CAGNNNCTG	1 cut(s)	347
Ama87I	CYCGRG	1 cut(s)	229
AoxI	GGCC	3 cut(s)	80, 800, 833
ApeKI	GCWGC	3 cut(s)	881, 1010, 1214
ApoI	RAATTY	2 cut(s)	588, 684
Asp700I	GAANNNNTTC	2 cut(s)	238, 318
AspA2I	CCTAGG	1 cut(s)	77
AvaI	CYCGRG	1 cut(s)	229
AvrII	CCTAGG	1 cut(s)	77
AxyI	CCTNAGG	1 cut(s)	340
BaeGI	GKGCMC	1 cut(s)	575
BanII	GRGCYC	1 cut(s)	230
Bbv12I	GWGCWC	1 cut(s)	230
BbvI	GCAGC	3 cut(s)	868, 997, 1226
BccI	CCATC	3 cut(s)	18, 32, 479
BciT130I	CCWGG	4 cut(s)	396, 576, 744, 1173
BciVI	GTATCC	3 cut(s)	66, 550, 1087
BclI	TGATCA	1 cut(s)	921
BfaI	CTAG	6 cut(s)	78, 285, 581, 831, 1014, 1160
BfmI	CTRYAG	3 cut(s)	816, 936, 1212
BfrI	CTTAAG	1 cut(s)	863
BfuAI	ACCTGC	1 cut(s)	929
BfuI	GTATCC	3 cut(s)	66, 550, 1087
BisI	GCNGC	3 cut(s)	882, 1011, 1215
BlnI	CCTAGG	1 cut(s)	77
BlsI	GCNGC	3 cut(s)	883, 1012, 1216
Bme1390I	CCNGG	4 cut(s)	396, 576, 744, 1173
BmeT110I	CYCGRG	1 cut(s)	229
BmiI	GGNNCC	2 cut(s)	393, 1053
BmrFI	CCNGG	4 cut(s)	396, 576, 744, 1173
BmsI	GCATC	4 cut(s)	187, 256, 766, 868
BplI	GAGNNNNNCTC	2 cut(s)	650, 682
BsaJI	CCNNGG	7 cut(s)	68, 77, 387, 574, 575, 836, 1172
BsaWI	WCCGGW	1 cut(s)	190
BsaXI	ACNNNNNCTCC	4 cut(s)	412, 442, 832, 862
Bsc4I	CCNNNNNNNGG	4 cut(s)	126, 156, 854, 1084
Bse21I	CCTNAGG	1 cut(s)	340
BseBI	CCWGG	4 cut(s)	396, 576, 744, 1173
BseDI	CCNNGG	7 cut(s)	68, 77, 387, 574, 575, 836, 1172
BseGI	GGATG	2 cut(s)	146, 1120
BseLI	CCNNNNNNNGG	4 cut(s)	126, 156, 854, 1084
BseMII	CTCAG	2 cut(s)	354, 513
BseRI	GAGGAG	2 cut(s)	837, 1124
BseSI	GKGCMC	1 cut(s)	575
BseXI	GCAGC	3 cut(s)	868, 997, 1226
BseYI	CCCAGC	1 cut(s)	347
BshFI	GGCC	3 cut(s)	82, 802, 835
BsiHKAI	GWGCWC	1 cut(s)	230
BsiHKCI	CYCGRG	1 cut(s)	229
BsiSI	CCGG	2 cut(s)	106, 191
BslFI	GGGAC	1 cut(s)	30
BslI	CCNNNNNNNGG	4 cut(s)	126, 156, 854, 1084
BsmFI	GGGAC	1 cut(s)	30
BsnI	GGCC	3 cut(s)	82, 802, 835
BsoBI	CYCGRG	1 cut(s)	229
Bsp1286I	GDGCHC	2 cut(s)	230, 575
Bsp143I	GATC	4 cut(s)	64, 187, 921, 1255
Bsp19I	CCATGG	1 cut(s)	836
BspACI	CCGC	2 cut(s)	200, 998
BspANI	GGCC	3 cut(s)	82, 802, 835
BspCNI	CTCAG	2 cut(s)	353, 514
BspLI	GGNNCC	2 cut(s)	393, 1053
BspMAI	CTGCAG	2 cut(s)	940, 1216
BspMI	ACCTGC	1 cut(s)	929
BspPI	GGATC	2 cut(s)	59, 182
BspTI	CTTAAG	1 cut(s)	863
BssECI	CCNNGG	7 cut(s)	68, 77, 387, 574, 575, 836, 1172
BssMI	GATC	4 cut(s)	64, 187, 921, 1255
BssT1I	CCWWGG	4 cut(s)	68, 77, 387, 836
Bst2UI	CCWGG	4 cut(s)	396, 576, 744, 1173
Bst4CI	ACNGT	2 cut(s)	238, 817
BstAFI	CTTAAG	1 cut(s)	863
BstAPI	GCANNNNNTGC	1 cut(s)	1010
BstC8I	GCNNGC	1 cut(s)	1227
BstDEI	CTNAG	6 cut(s)	20, 340, 522, 563, 1230, 1289
BstDSI	CCRYGG	1 cut(s)	836
BstF5I	GGATG	2 cut(s)	146, 1120
BstKTI	GATC	4 cut(s)	67, 190, 924, 1258
BstMBI	GATC	4 cut(s)	64, 187, 921, 1255
BstMWI	GCNNNNNNNGC	4 cut(s)	730, 1010, 1019, 1235
BstNI	CCWGG	4 cut(s)	396, 576, 744, 1173
BstNSI	RCATGY	4 cut(s)	473, 530, 571, 752
BstSCI	CCNGG	4 cut(s)	394, 574, 742, 1171
BstSFI	CTRYAG	3 cut(s)	816, 936, 1212
BstSLI	GKGCMC	1 cut(s)	575
BstV1I	GCAGC	3 cut(s)	868, 997, 1226
BstX2I	RGATCY	1 cut(s)	64
BstXI	CCANNNNNNTGG	1 cut(s)	858
BstYI	RGATCY	1 cut(s)	64
Bsu36I	CCTNAGG	1 cut(s)	340
BsuI	GTATCC	3 cut(s)	66, 550, 1087
BsuRI	GGCC	3 cut(s)	82, 802, 835
BtgI	CCRYGG	1 cut(s)	836
BtgZI	GCGATG	1 cut(s)	51
BtsCI	GGATG	2 cut(s)	146, 1120
BveI	ACCTGC	1 cut(s)	929
Cac8I	GCNNGC	1 cut(s)	1227
CaiI	CAGNNNCTG	1 cut(s)	347
Csp6I	GTAC	1 cut(s)	813
CviAII	CATG	9 cut(s)	126, 323, 413, 470, 527, 568, 749, 837, 1190
CviQI	GTAC	1 cut(s)	813
DdeI	CTNAG	6 cut(s)	20, 340, 522, 563, 1230, 1289
DpnI	GATC	4 cut(s)	66, 189, 923, 1257
DpnII	GATC	4 cut(s)	64, 187, 921, 1255
EciI	GGCGGA	1 cut(s)	1013
Ecl136II	GAGCTC	1 cut(s)	228
Eco130I	CCWWGG	4 cut(s)	68, 77, 387, 836
Eco147I	AGGCCT	1 cut(s)	82
Eco24I	GRGCYC	1 cut(s)	230
Eco53kI	GAGCTC	1 cut(s)	228
Eco57I	CTGAAG	1 cut(s)	287
Eco81I	CCTNAGG	1 cut(s)	340
Eco88I	CYCGRG	1 cut(s)	229
EcoICRI	GAGCTC	1 cut(s)	228
EcoRII	CCWGG	4 cut(s)	394, 574, 742, 1171
EcoT14I	CCWWGG	4 cut(s)	68, 77, 387, 836
EcoT38I	GRGCYC	1 cut(s)	230
ErhI	CCWWGG	4 cut(s)	68, 77, 387, 836
FaeI	CATG	9 cut(s)	129, 326, 416, 473, 530, 571, 752, 840, 1193
FaqI	GGGAC	1 cut(s)	30
FatI	CATG	9 cut(s)	125, 322, 412, 469, 526, 567, 748, 836, 1189
FauNDI	CATATG	1 cut(s)	792
FbaI	TGATCA	1 cut(s)	921
Fnu4HI	GCNGC	3 cut(s)	882, 1011, 1215
FokI	GGATG	2 cut(s)	133, 1127
FriOI	GRGCYC	1 cut(s)	230
Fsp4HI	GCNGC	3 cut(s)	882, 1011, 1215
FspBI	CTAG	6 cut(s)	78, 285, 581, 831, 1014, 1160
GluI	GCNGC	3 cut(s)	882, 1011, 1215
GsaI	CCCAGC	1 cut(s)	351
HaeIII	GGCC	3 cut(s)	82, 802, 835
HapII	CCGG	2 cut(s)	106, 191
Hin1II	CATG	9 cut(s)	129, 326, 416, 473, 530, 571, 752, 840, 1193
HinfI	GANTC	8 cut(s)	319, 632, 659, 932, 1067, 1118, 1202, 1276
HpaII	CCGG	2 cut(s)	106, 191
Hpy166II	GTNNAC	1 cut(s)	1141
Hpy188I	TCNGA	3 cut(s)	54, 244, 1072
Hpy188III	TCNNGA	4 cut(s)	231, 360, 606, 1199
Hpy8I	GTNNAC	1 cut(s)	1141
HpyAV	CCTTC	4 cut(s)	93, 442, 694, 961
HpyCH4III	ACNGT	2 cut(s)	238, 817
HpyCH4IV	ACGT	2 cut(s)	811, 1100
HpyCH4V	TGCA	5 cut(s)	501, 895, 938, 1034, 1214
HpyF10VI	GCNNNNNNNGC	4 cut(s)	730, 1010, 1019, 1235
HpyF3I	CTNAG	6 cut(s)	20, 340, 522, 563, 1230, 1289
HpySE526I	ACGT	2 cut(s)	811, 1100
Hsp92II	CATG	9 cut(s)	129, 326, 416, 473, 530, 571, 752, 840, 1193
Ksp22I	TGATCA	1 cut(s)	921
Kzo9I	GATC	4 cut(s)	64, 187, 921, 1255
LmnI	GCTCC	2 cut(s)	331, 1057
Lsp1109I	GCAGC	3 cut(s)	868, 997, 1226
LweI	GCATC	4 cut(s)	187, 256, 766, 868
MaeI	CTAG	6 cut(s)	78, 285, 581, 831, 1014, 1160
MaeII	ACGT	2 cut(s)	811, 1100
MaeIII	GTNAC	3 cut(s)	491, 979, 1040
MalI	GATC	4 cut(s)	66, 189, 923, 1257
MboI	GATC	4 cut(s)	64, 187, 921, 1255
MboII	GAAGA	4 cut(s)	36, 74, 293, 431
MfeI	CAATTG	2 cut(s)	502, 852
MflI	RGATCY	1 cut(s)	64
MhlI	GDGCHC	2 cut(s)	230, 575
MluCI	AATT	9 cut(s)	178, 502, 588, 684, 852, 990, 1045, 1082, 1207
MlyI	GAGTC	3 cut(s)	668, 1076, 1211
MmeI	TCCRAC	3 cut(s)	137, 353, 609
MroXI	GAANNNNTTC	2 cut(s)	238, 318
MseI	TTAA	2 cut(s)	405, 864
MslI	CAYNNNNRTG	1 cut(s)	264
MspCI	CTTAAG	1 cut(s)	863
MspI	CCGG	2 cut(s)	106, 191
MspR9I	CCNGG	4 cut(s)	396, 576, 744, 1173
MunI	CAATTG	2 cut(s)	502, 852
MvaI	CCWGG	4 cut(s)	396, 576, 744, 1173
MwoI	GCNNNNNNNGC	4 cut(s)	730, 1010, 1019, 1235
NcoI	CCATGG	1 cut(s)	836
NdeI	CATATG	1 cut(s)	792
NdeII	GATC	4 cut(s)	64, 187, 921, 1255
NlaIII	CATG	9 cut(s)	129, 326, 416, 473, 530, 571, 752, 840, 1193
NlaIV	GGNNCC	2 cut(s)	393, 1053
NmuCI	GTSAC	1 cut(s)	1040
NspI	RCATGY	4 cut(s)	473, 530, 571, 752
PaeR7I	CTCGAG	1 cut(s)	229
PasI	CCCWGGG	1 cut(s)	575
PceI	AGGCCT	1 cut(s)	82
PciI	ACATGT	1 cut(s)	748
PdmI	GAANNNNTTC	2 cut(s)	238, 318
PfeI	GAWTC	5 cut(s)	319, 632, 932, 1118, 1276
PflMI	CCANNNNNTGG	1 cut(s)	1084
PfoI	TCCNGGA	2 cut(s)	394, 742
PkrI	GCNGC	3 cut(s)	883, 1012, 1216
PleI	GAGTC	3 cut(s)	667, 1075, 1210
PpsI	GAGTC	3 cut(s)	667, 1075, 1210
PscI	ACATGT	1 cut(s)	748
PsiI	TTATAA	1 cut(s)	786
Psp124BI	GAGCTC	1 cut(s)	230
Psp6I	CCWGG	4 cut(s)	394, 574, 742, 1171
PspFI	CCCAGC	1 cut(s)	347
PspGI	CCWGG	4 cut(s)	394, 574, 742, 1171
PspN4I	GGNNCC	2 cut(s)	393, 1053
PstI	CTGCAG	2 cut(s)	940, 1216
PstNI	CAGNNNCTG	1 cut(s)	347
PsuI	RGATCY	1 cut(s)	64
RsaI	GTAC	1 cut(s)	814
RsaNI	GTAC	1 cut(s)	813
RseI	CAYNNNNRTG	1 cut(s)	264
SacI	GAGCTC	1 cut(s)	230
SaqAI	TTAA	2 cut(s)	405, 864
SatI	GCNGC	3 cut(s)	882, 1011, 1215
Sau3AI	GATC	4 cut(s)	64, 187, 921, 1255
SchI	GAGTC	3 cut(s)	668, 1076, 1211
ScrFI	CCNGG	4 cut(s)	396, 576, 744, 1173
SduI	GDGCHC	2 cut(s)	230, 575
SfaNI	GCATC	4 cut(s)	187, 256, 766, 868
SfcI	CTRYAG	3 cut(s)	816, 936, 1212
Sfr274I	CTCGAG	1 cut(s)	229
SlaI	CTCGAG	1 cut(s)	229
SmiMI	CAYNNNNRTG	1 cut(s)	264
SmlI	CTYRAG	2 cut(s)	229, 863
SmoI	CTYRAG	2 cut(s)	229, 863
Sse9I	AATT	9 cut(s)	178, 502, 588, 684, 852, 990, 1045, 1082, 1207
SseBI	AGGCCT	1 cut(s)	82
SsiI	CCGC	2 cut(s)	200, 998
SspMI	CTAG	6 cut(s)	78, 285, 581, 831, 1014, 1160
SstI	GAGCTC	1 cut(s)	230
StuI	AGGCCT	1 cut(s)	82
StyD4I	CCNGG	4 cut(s)	394, 574, 742, 1171
StyI	CCWWGG	4 cut(s)	68, 77, 387, 836
TaaI	ACNGT	2 cut(s)	238, 817
TaiI	ACGT	2 cut(s)	814, 1103
TaqI	TCGA	4 cut(s)	122, 230, 264, 1198
TasI	AATT	9 cut(s)	178, 502, 588, 684, 852, 990, 1045, 1082, 1207
TfiI	GAWTC	5 cut(s)	319, 632, 932, 1118, 1276
Tru1I	TTAA	2 cut(s)	405, 864
Tru9I	TTAA	2 cut(s)	405, 864
TseFI	GTSAC	1 cut(s)	1040
TseI	GCWGC	3 cut(s)	881, 1010, 1214
Tsp45I	GTSAC	1 cut(s)	1040
TspDTI	ATGAA	3 cut(s)	311, 401, 424
TspGWI	ACGGA	1 cut(s)	449
Van91I	CCANNNNNTGG	1 cut(s)	1084
Vha464I	CTTAAG	1 cut(s)	863
XapI	RAATTY	2 cut(s)	588, 684
XceI	RCATGY	4 cut(s)	473, 530, 571, 752
XhoI	CTCGAG	1 cut(s)	229
XmaJI	CCTAGG	1 cut(s)	77
XmnI	GAANNNNTTC	2 cut(s)	238, 318
XspI	CTAG	6 cut(s)	78, 285, 581, 831, 1014, 1160

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