Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000004

Orthogroup ID

OG0002710

Physical Location & Seq

Genomic Coordinates Reverse (-)

46911657 .. 46913279

Gene Structure 1623 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug04G0294900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1623 bp

ATGTCTGGGGTTCCTGAAGCTGATGAAGCTATTGGTTGTGGAATTAATGGAGCTGATCATGGAAATTACAGCAATGTTATGGTATTTGAATATGATCATGAGCAAAGAGATCTGACGGCTCTTGCAGAGTTGATTTGCTCTGGAGAAATTCCACCTAAGATGGCTGAAGATATTGATTTAAGGAAGTTCACGAATATGAGTACCCCGCTGTTTAAGCCTAGTTTTGATAGGGTTGAAAGTGAGTGCATGAGAGTGTATGAGGAGAGGAAACTGGAAATTAAAGAGTTCTTGGGTGCTTTCAATGGACAGATTAGCCTCTCGGTGGACAGATTGAGGTACAAAACTTACCGTTTCTGTGGACACTATTTGTGCCTTTCTGCTAGTTTTATTGATGAGAATTGGAAACTGAGGAACTGGGTGCTTTATTGCCATAGTTTATCAAATCCACTTGATGATTTCCTTAAGGTGCTTGAAGGTTGGGGATTTGGGAACAAGGTATCCACACTAACAATGACAAATGCTGATCATGGGGATTGCCCTGAATTGATTGAGTTTGTGGAAACACACATCCAAGAAAAGAAGAAACTTGAAGTAAGCCGTCAGCTGGTTCATGTGTATTGTTGTGGGGAAATGATCAGTCAAATGGTGCAGGATGCATTTGACAAGATTAAGGACATTATAGACAAAGTTCTCAAATTGTATTCTACAAAATCATTACCCTTGTGGTATCTCACCAACTCCAAGCTAAAGCATGCTGTTGAATTATGGTCTAAGGGAGAGTTCTCTTCAAAATATGTGACTGATTCAAGTGATGTACCATCCCCGGAAGAATGGAAGAAAGTTGAGGGTGTTTGTAAGATTGTCGAGAGCATCTATGAAGTATCAAGTGCTTTATTTGAATCAAAGCCCTTGACAGCTAATGTCTTTCTTTACCACCTGCATGAGCTCCGAGACATTCTGACCCAAATATCCATTACTGACTCCGATAGTTTTAATGGAGCAATAGTTGAAGGCATGCTGACAAGATTTGATAAGTATTGGAATGACATGTTCATGTTGTTGGCAATAGCTTCAGCCTTGGATCCTCGACTGAAATTGAAATATGTAGAATTTGTTTCTATGAGACTCAATGGTATGGAAGGAAGCTTACAAGTTGCAGATGTTTTGGGCGCCATTCACAAACTCTATGATGACTATCTGATCCGTTTTCCTGTAAAGGAAAACTTCATGCGTTACTCATCTTGTTCCGGTCTAGATACTGAAATGGAGTCTTCTCCTCCCAATCAAGTGAACCATACTCTTAATGTGTTGCAAGACTACCACCAGTTCATCCAATTGGGTATTCAGTCTACAAAAAAATCGGAGCTGGATTGCTATCTCGAAGAACCAGTGATACATGGGAGTCCAGATTTCGATGTACTGACTTGGTGGAGCACTGCTGATGCCAAGTATCCTACTCTCTCTAGAATGGCACGGGATTTCTTGGCCATTCCAGTTTCTCTGGCAACTTCATATGAAGCATTTTACTCTAAACCAAGGCCAGCTGATGAAAGTTTAGTTTGTTTGAAGCCTGACTTGATGAATGCCTTAATGTGCACTCGTAGCTGGTCTTGTAAGCACTGA

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

DUF1262

Protein Analysis

540

Amino Acids

61.82

Weight (kDa)

5.18

Isoelectric Point (pI)

33.68

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
hAT-like_RNase-H	PF14372	301 - 399	2.9e-18	hAT-like transposase, RNase-H fold
Dimer_Tnp_hAT	PF05699	455 - 536	1.1e-21	hAT family C-terminal dimerisation region

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: OG0002710)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G13470 AT1G13480 AT1G13490 AT1G13490 AT1G13500 AT1G13510 AT1G13520 AT1G13530 AT1G13540 AT1G13550
fragaria_vesca	FvH4_4g28550 FvH4_4g28552 FvH4_4g28553
malus_domestica	MD13G1051700.v1.1 MD13G1051900.v1.1 MD13G1052000.v1.1 MD16G1057800.v1.1
prunus_persica	Prupe.1G300000_v2.0.a1 Prupe.1G300100_v2.0.a1
pyrus_communis	pycom13g04620 pycom16g05060
rosa_chinensis	RchiOBHm_Chr4g0436651 RchiOBHm_Chr4g0436661
rosa_multiflora	Rmu_sc0003130.1_g000017 Rmu_sc0003130.1_g000018
rosa_roxburghii	Rroxscaffold_5G00377730 Rroxscaffold_5G00377740
rosa_rugosa	Rorug04G0294900 Rorug04G0295000
rosa_samantha	Rh4AG349400 Rh4AG349500 Rh4BG358100 Rh4BG358200 Rh4CG372500 Rh4CG372600 Rh4DG352300 Rh4DG352400
rosa_wichuraiana	Rw4G030560 Rw4G030570

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	945
Acc36I	ACCTGC	1 cut(s)	945
AccB1I	GGYRCC	1 cut(s)	1169
AccI	GTMKAC	1 cut(s)	1349
AciI	CCGC	1 cut(s)	206
AclWI	GGATC	3 cut(s)	1076, 1089, 1195
AcoI	YGGCCR	1 cut(s)	1485
AcsI	RAATTY	2 cut(s)	147, 1109
AcuI	CTGAAG	3 cut(s)	36, 186, 1056
AcyI	GRCGYC	1 cut(s)	1170
AfaI	GTAC	4 cut(s)	202, 338, 816, 1419
AfiI	CCNNNNNNNGG	2 cut(s)	322, 604
AflII	CTTAAG	1 cut(s)	461
AflIII	ACRYGT	1 cut(s)	1047
AjuI	GAANNNNNNNTTGG	2 cut(s)	1326, 1358
AloI	GAACNNNNNNTCC	2 cut(s)	482, 514
Alw21I	GWGCWC	3 cut(s)	948, 1436, 1598
Alw26I	GTCTC	2 cut(s)	945, 1117
Alw44I	GTGCAC	1 cut(s)	1594
AlwI	GGATC	3 cut(s)	1076, 1089, 1195
AoxI	GGCC	2 cut(s)	1485, 1538
ApaLI	GTGCAC	1 cut(s)	1594
ApoI	RAATTY	2 cut(s)	147, 1109
AseI	ATTAAT	1 cut(s)	45
AspLEI	GCGC	1 cut(s)	1172
AsuC2I	CCSGG	1 cut(s)	824
AsuHPI	GGTGA	1 cut(s)	724
BaeGI	GKGCMC	1 cut(s)	1598
BalI	TGGCCA	1 cut(s)	1487
BamHI	GGATCC	1 cut(s)	1081
BanI	GGYRCC	1 cut(s)	1169
BanII	GRGCYC	1 cut(s)	948
BarI	GAAGNNNNNNTAC	2 cut(s)	1131, 1163
BbsI	GAAGAC	1 cut(s)	1263
Bbv12I	GWGCWC	3 cut(s)	948, 1436, 1598
BccI	CCATC	2 cut(s)	154, 826
BceAI	ACGGC	2 cut(s)	132, 582
BciVI	GTATCC	2 cut(s)	508, 1461
BclI	TGATCA	4 cut(s)	55, 94, 523, 633
BcnI	CCSGG	1 cut(s)	824
BcoDI	GTCTC	2 cut(s)	945, 1117
BfaI	CTAG	4 cut(s)	219, 381, 1253, 1464
BfoI	RGCGCY	1 cut(s)	1173
BfrI	CTTAAG	1 cut(s)	461
BfuAI	ACCTGC	1 cut(s)	945
BfuI	GTATCC	2 cut(s)	508, 1461
BglII	AGATCT	1 cut(s)	109
Bme1390I	CCNGG	1 cut(s)	824
BmiI	GGNNCC	3 cut(s)	12, 1083, 1171
BmrFI	CCNGG	1 cut(s)	824
BmrI	ACTGGG	1 cut(s)	424
BmsI	GCATC	3 cut(s)	643, 879, 1432
BmuI	ACTGGG	1 cut(s)	424
BpiI	GAAGAC	1 cut(s)	1263
BpmI	CTGGAG	1 cut(s)	162
BpuMI	CCSGG	1 cut(s)	824
BsaBI	GATNNNNATC	2 cut(s)	1194, 1374
BsaHI	GRCGYC	1 cut(s)	1170
BsaJI	CCNNGG	3 cut(s)	822, 1077, 1535
BsaWI	WCCGGW	1 cut(s)	1247
BsaXI	ACNNNNNCTCC	2 cut(s)	990, 1020
Bsc4I	CCNNNNNNNGG	2 cut(s)	322, 604
Bse1I	ACTGG	5 cut(s)	276, 419, 1324, 1388, 1493
Bse3DI	GCAATG	1 cut(s)	79
Bse8I	GATNNNNATC	2 cut(s)	1194, 1374
BseDI	CCNNGG	3 cut(s)	822, 1077, 1535
BseGI	GGATG	4 cut(s)	567, 658, 818, 1329
BseJI	GATNNNNATC	2 cut(s)	1194, 1374
BseLI	CCNNNNNNNGG	2 cut(s)	322, 604
BseMI	GCAATG	1 cut(s)	79
BseMII	CTCAG	1 cut(s)	398
BseNI	ACTGG	5 cut(s)	276, 419, 1324, 1388, 1493
BseRI	GAGGAG	2 cut(s)	275, 1266
BseSI	GKGCMC	1 cut(s)	1598
BsgI	GTGCAG	1 cut(s)	668
BshFI	GGCC	2 cut(s)	1487, 1540
BshNI	GGYRCC	1 cut(s)	1169
BsiHKAI	GWGCWC	3 cut(s)	948, 1436, 1598
BsiSI	CCGG	2 cut(s)	824, 1248
BslI	CCNNNNNNNGG	2 cut(s)	322, 604
BsmAI	GTCTC	2 cut(s)	945, 1117
BsmI	GAATGC	1 cut(s)	1588
BsnI	GGCC	2 cut(s)	1487, 1540
Bsp1286I	GDGCHC	3 cut(s)	948, 1436, 1598
Bsp143I	GATC	7 cut(s)	55, 94, 109, 523, 633, 1081, 1200
BspACI	CCGC	1 cut(s)	206
BspANI	GGCC	2 cut(s)	1487, 1540
BspCNI	CTCAG	1 cut(s)	399
BspHI	TCATGA	1 cut(s)	97
BspLI	GGNNCC	3 cut(s)	12, 1083, 1171
BspMI	ACCTGC	1 cut(s)	945
BspPI	GGATC	3 cut(s)	1076, 1089, 1195
BspT107I	GGYRCC	1 cut(s)	1169
BspTI	CTTAAG	1 cut(s)	461
BsrDI	GCAATG	1 cut(s)	79
BsrI	ACTGG	5 cut(s)	276, 419, 1324, 1388, 1493
BssECI	CCNNGG	3 cut(s)	822, 1077, 1535
BssMI	GATC	7 cut(s)	55, 94, 109, 523, 633, 1081, 1200
BssNI	GRCGYC	1 cut(s)	1170
BssT1I	CCWWGG	2 cut(s)	1077, 1535
Bst4CI	ACNGT	1 cut(s)	350
Bst6I	CTCTTC	1 cut(s)	790
BstACI	GRCGYC	1 cut(s)	1170
BstAFI	CTTAAG	1 cut(s)	461
BstC8I	GCNNGC	3 cut(s)	753, 1016, 1542
BstDEI	CTNAG	3 cut(s)	156, 407, 771
BstF5I	GGATG	4 cut(s)	567, 658, 818, 1329
BstH2I	RGCGCY	1 cut(s)	1173
BstHHI	GCGC	1 cut(s)	1172
BstKTI	GATC	7 cut(s)	58, 97, 112, 526, 636, 1084, 1203
BstMAI	GTCTC	2 cut(s)	945, 1117
BstMBI	GATC	7 cut(s)	55, 94, 109, 523, 633, 1081, 1200
BstMWI	GCNNNNNNNGC	3 cut(s)	26, 214, 1602
BstNSI	RCATGY	3 cut(s)	755, 1018, 1051
BstSCI	CCNGG	1 cut(s)	822
BstSLI	GKGCMC	1 cut(s)	1598
BstV2I	GAAGAC	1 cut(s)	1263
BstX2I	RGATCY	2 cut(s)	109, 1081
BstYI	RGATCY	2 cut(s)	109, 1081
BsuI	GTATCC	2 cut(s)	508, 1461
BsuRI	GGCC	2 cut(s)	1487, 1540
BtsCI	GGATG	4 cut(s)	567, 658, 818, 1329
BtsI	GCAGTG	1 cut(s)	1434
BtsIMutI	CAGTG	3 cut(s)	1395, 1434, 1618
BveI	ACCTGC	1 cut(s)	945
Cac8I	GCNNGC	3 cut(s)	753, 1016, 1542
CciI	TCATGA	1 cut(s)	97
CfoI	GCGC	1 cut(s)	1172
Csp6I	GTAC	4 cut(s)	201, 337, 815, 1418
CviQI	GTAC	4 cut(s)	201, 337, 815, 1418
DdeI	CTNAG	3 cut(s)	156, 407, 771
DinI	GGCGCC	1 cut(s)	1171
DpnI	GATC	7 cut(s)	57, 96, 111, 525, 635, 1083, 1202
DpnII	GATC	7 cut(s)	55, 94, 109, 523, 633, 1081, 1200
EaeI	YGGCCR	1 cut(s)	1485
Eam1104I	CTCTTC	1 cut(s)	790
EarI	CTCTTC	1 cut(s)	790
Ecl136II	GAGCTC	1 cut(s)	946
Eco130I	CCWWGG	2 cut(s)	1077, 1535
Eco24I	GRGCYC	1 cut(s)	948
Eco53kI	GAGCTC	1 cut(s)	946
Eco57I	CTGAAG	3 cut(s)	36, 186, 1056
EcoICRI	GAGCTC	1 cut(s)	946
EcoT14I	CCWWGG	2 cut(s)	1077, 1535
EcoT22I	ATGCAT	1 cut(s)	658
EcoT38I	GRGCYC	1 cut(s)	948
EgeI	GGCGCC	1 cut(s)	1171
EheI	GGCGCC	1 cut(s)	1171
ErhI	CCWWGG	2 cut(s)	1077, 1535
FalI	AAGNNNNNCTT	4 cut(s)	1208, 1240, 1559, 1591
FauI	CCCGC	1 cut(s)	213
FauNDI	CATATG	1 cut(s)	1513
FbaI	TGATCA	4 cut(s)	55, 94, 523, 633
FblI	GTMKAC	1 cut(s)	1349
FokI	GGATG	4 cut(s)	554, 665, 805, 1316
FriOI	GRGCYC	1 cut(s)	948
FspBI	CTAG	4 cut(s)	219, 381, 1253, 1464
GlaI	GCGC	1 cut(s)	1171
GsuI	CTGGAG	1 cut(s)	162
HaeII	RGCGCY	1 cut(s)	1173
HaeIII	GGCC	2 cut(s)	1487, 1540
HapII	CCGG	2 cut(s)	824, 1248
HhaI	GCGC	1 cut(s)	1172
Hin1I	GRCGYC	1 cut(s)	1170
Hin6I	GCGC	1 cut(s)	1170
HinP1I	GCGC	1 cut(s)	1170
HindIII	AAGCTT	1 cut(s)	1144
HinfI	GANTC	6 cut(s)	803, 899, 980, 1125, 1268, 1402
HpaII	CCGG	2 cut(s)	824, 1248
HphI	GGTGA	1 cut(s)	724
Hpy166II	GTNNAC	6 cut(s)	189, 325, 359, 1291, 1350, 1596
Hpy188I	TCNGA	6 cut(s)	114, 950, 960, 985, 1200, 1363
Hpy188III	TCNNGA	9 cut(s)	14, 98, 141, 190, 865, 1253, 1379, 1406, 1464
Hpy8I	GTNNAC	6 cut(s)	189, 325, 359, 1291, 1350, 1596
HpyAV	CCTTC	3 cut(s)	467, 1004, 1133
HpyCH4III	ACNGT	1 cut(s)	350
HpyCH4V	TGCA	8 cut(s)	125, 246, 649, 656, 940, 1157, 1312, 1596
HpyF10VI	GCNNNNNNNGC	3 cut(s)	26, 214, 1602
HpyF3I	CTNAG	3 cut(s)	156, 407, 771
Hsp92I	GRCGYC	1 cut(s)	1170
HspAI	GCGC	1 cut(s)	1170
KasI	GGCGCC	1 cut(s)	1169
Ksp22I	TGATCA	4 cut(s)	55, 94, 523, 633
Kzo9I	GATC	7 cut(s)	55, 94, 109, 523, 633, 1081, 1200
LmnI	GCTCC	5 cut(s)	50, 951, 998, 1363, 1431
LweI	GCATC	3 cut(s)	643, 879, 1432
MaeI	CTAG	4 cut(s)	219, 381, 1253, 1464
MaeIII	GTNAC	2 cut(s)	796, 1232
MalI	GATC	7 cut(s)	57, 96, 111, 525, 635, 1083, 1202
MboI	GATC	7 cut(s)	55, 94, 109, 523, 633, 1081, 1200
MboII	GAAGA	7 cut(s)	179, 592, 777, 839, 847, 1263, 1394
MfeI	CAATTG	1 cut(s)	1334
MflI	RGATCY	2 cut(s)	109, 1081
MhlI	GDGCHC	3 cut(s)	948, 1436, 1598
MlsI	TGGCCA	1 cut(s)	1487
MluNI	TGGCCA	1 cut(s)	1487
Mly113I	GGCGCC	1 cut(s)	1170
MlyI	GAGTC	4 cut(s)	974, 1119, 1277, 1411
MnlI	CCTC	8 cut(s)	253, 258, 326, 327, 402, 838, 1095, 1287
Mox20I	TGGCCA	1 cut(s)	1487
Mph1103I	ATGCAT	1 cut(s)	658
MscI	TGGCCA	1 cut(s)	1487
MseI	TTAA	9 cut(s)	45, 179, 213, 279, 462, 669, 993, 1302, 1589
MslI	CAYNNNNRTG	4 cut(s)	194, 251, 939, 1052
Msp20I	TGGCCA	1 cut(s)	1487
MspA1I	CMGCKG	3 cut(s)	208, 604, 1544
MspCI	CTTAAG	1 cut(s)	461
MspI	CCGG	2 cut(s)	824, 1248
MspR9I	CCNGG	1 cut(s)	824
MunI	CAATTG	1 cut(s)	1334
Mva1269I	GAATGC	1 cut(s)	1588
MwoI	GCNNNNNNNGC	3 cut(s)	26, 214, 1602
NarI	GGCGCC	1 cut(s)	1170
NciI	CCSGG	1 cut(s)	824
NdeI	CATATG	1 cut(s)	1513
NdeII	GATC	7 cut(s)	55, 94, 109, 523, 633, 1081, 1200
NlaIV	GGNNCC	3 cut(s)	12, 1083, 1171
NmuCI	GTSAC	1 cut(s)	796
NsiI	ATGCAT	1 cut(s)	658
NspI	RCATGY	3 cut(s)	755, 1018, 1051
PaeI	GCATGC	2 cut(s)	755, 1018
PagI	TCATGA	1 cut(s)	97
PaqCI	CACCTGC	1 cut(s)	945
PciI	ACATGT	1 cut(s)	1047
PctI	GAATGC	1 cut(s)	1588
PfeI	GAWTC	2 cut(s)	803, 899
PleI	GAGTC	4 cut(s)	974, 1119, 1276, 1410
PluTI	GGCGCC	1 cut(s)	1173
PpsI	GAGTC	4 cut(s)	974, 1119, 1276, 1410
PscI	ACATGT	1 cut(s)	1047
PshBI	ATTAAT	1 cut(s)	45
Psp124BI	GAGCTC	1 cut(s)	948
PspN4I	GGNNCC	3 cut(s)	12, 1083, 1171
PsrI	GAACNNNNNNTAC	2 cut(s)	1377, 1409
PsuI	RGATCY	2 cut(s)	109, 1081
PvuII	CAGCTG	2 cut(s)	604, 1544
RsaI	GTAC	4 cut(s)	202, 338, 816, 1419
RsaNI	GTAC	4 cut(s)	201, 337, 815, 1418
RseI	CAYNNNNRTG	4 cut(s)	194, 251, 939, 1052
SacI	GAGCTC	1 cut(s)	948
SaqAI	TTAA	9 cut(s)	45, 179, 213, 279, 462, 669, 993, 1302, 1589
Sau3AI	GATC	7 cut(s)	55, 94, 109, 523, 633, 1081, 1200
SchI	GAGTC	4 cut(s)	974, 1119, 1277, 1411
ScrFI	CCNGG	1 cut(s)	824
SduI	GDGCHC	3 cut(s)	948, 1436, 1598
SfaNI	GCATC	3 cut(s)	643, 879, 1432
SfoI	GGCGCC	1 cut(s)	1171
SmiMI	CAYNNNNRTG	4 cut(s)	194, 251, 939, 1052
SmlI	CTYRAG	1 cut(s)	461
SmoI	CTYRAG	1 cut(s)	461
SphI	GCATGC	2 cut(s)	755, 1018
SsiI	CCGC	1 cut(s)	206
SspDI	GGCGCC	1 cut(s)	1169
SspMI	CTAG	4 cut(s)	219, 381, 1253, 1464
SstI	GAGCTC	1 cut(s)	948
StyD4I	CCNGG	1 cut(s)	822
StyI	CCWWGG	2 cut(s)	1077, 1535
TaaI	ACNGT	1 cut(s)	350
TaqI	TCGA	4 cut(s)	864, 1087, 1380, 1413
TatI	WGTACW	1 cut(s)	1417
TfiI	GAWTC	2 cut(s)	803, 899
Tru1I	TTAA	9 cut(s)	45, 179, 213, 279, 462, 669, 993, 1302, 1589
Tru9I	TTAA	9 cut(s)	45, 179, 213, 279, 462, 669, 993, 1302, 1589
TscAI	CASTG	2 cut(s)	1395, 1441
TseFI	GTSAC	1 cut(s)	796
Tsp45I	GTSAC	1 cut(s)	796
TspGWI	ACGGA	1 cut(s)	1193
TspRI	CASTG	2 cut(s)	1395, 1441
Vha464I	CTTAAG	1 cut(s)	461
VneI	GTGCAC	1 cut(s)	1594
VspI	ATTAAT	1 cut(s)	45
XapI	RAATTY	2 cut(s)	147, 1109
XbaI	TCTAGA	2 cut(s)	1252, 1463
XceI	RCATGY	3 cut(s)	755, 1018, 1051
XmiI	GTMKAC	1 cut(s)	1349
XspI	CTAG	4 cut(s)	219, 381, 1253, 1464
Zsp2I	ATGCAT	1 cut(s)	658

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