Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr5

Orthogroup ID

OG0004837

Physical Location & Seq

Genomic Coordinates Reverse (-)

39968784 .. 39971210

Gene Structure 2427 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw5G027240.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1440 bp

ATGGAGTTAACTTCGAATGATGGCAATGTTGGATTCTCATTGAACCAAGTAACAAGCGATGAAGCAGGTAGTCACCATTCTCTAGAGAAAAATGTTCAAAAATTAAAATCACCTTATGTAGGAATGTTTTTTGAAACATTGGAAGAGACAGGAAGGTATTATGAAGATTATGGTCGACAAGAAGGTTTTTGGACTCGTATTCGAAGTTCATCAAAGTCTAGATCACAGTCAAATGAAGTGACAAGTAGATTATTTGTTTGTGCGCATCAAGGTAAACATGTCATGCAGACTCAAAAAGAGGATGACATGATAGAGGAAGAAGAGAAAGATGAGGAAGAAATATGTGACCAACAGACTGGAAAGAAGAGGCGGAGAAGTTGTTCAACAGTTAAATGTGAGTGTGAGGCTAGTATGCGAGTTCTTCATGACAAATGGACTAACAAATGGAAAGTATCAGTTTTCAGTGACATTCACAATCACAAAATTGTGACACCAGCTCGTAGGATGATGATGAAGTCGAATAGACATATGCCCAATGCAGCAAAAGATTTAACAGAAGCTTTTCAAAAAGAGAACTTACAAATCAATAAAGTTCCTTCAATGTTTGGTGGTGCTCAAAATGTTGGTTTTAACAATAGGGACTGTTATAATCATTTAAGCAACGTGAGGCACAAAGAGTTGGAATATGGAGATGCACAATCAGTCCTCAATTACTTTAGGAAAAAGCAAGCAGAAAATCCACAGTTCTTTTATGCTATCCAGTGTGATGAAGATGGTAGAGCTACTAATTTTTTTTGGGTGGATTCTAGATCAAGGATGGCGTATCAATATTTTGGGGATGTAGTGACATTCGATACAACATATCGGACAAATAAGTATGACATGCCATTTGCCCCATTTACTGGAGTTAACCATCACTTCCAATCCATACAATTTGGATGTGCCCTTTTGCAAGATGAGACGGAGGCGACATTTCTATGGTTATTTGAGACCTGGCTTGAAGCTATGGGAGGTCGACATCCATTATGTGTTATCACTGACCAAGATTTGGCAATGAAAGGAGCAATAGCTAAAATTTTTCCCAATACTCGTCACCGCCTCTGCATTTGGCATATAAAGAAAAAATTTGGTGAAAAGTTGTCACATGTATATTATAAAAAGTCTGATTTCAAGACTAGCATGAAAAAGTGTATATGGGCAACATACAGAATTGAGGATTTTGAAGAGCAATGGAAGAAGTTGATTGAGGAGCATGAATTGGAACAAAATGAATGGCTACAACAACTTTATGAAATTCGTGAATCTTGGGTTCCAGTATATAATCGCAGCACATTTTTTGCTGGAATGAATACAACAGGGCGTAGTGAAGGTACTAATGCATTTTTTGACGACTTTGTTACATCAACAACCAATCTGAGAGAATTTGTTGTCAATTTCTAA

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

FAR1 MULE SWIM

Protein Analysis

479

Amino Acids

56.36

Weight (kDa)

6.51

Isoelectric Point (pI)

49.39

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
FAR1	PF03101	52 - 163	4.3e-13	FAR1 DNA-binding domain
ZSWIM1-3_RNaseH-like	PF21056	246 - 364	4.1e-10	Zinc finger SWIM domain-containing protein 1/3, RNaseH-like domain
MULE	PF10551	281 - 375	3.1e-33	MULE transposase domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0004837)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_1g22662 FvH4_1g25683 FvH4_2g07931 FvH4_2g15201 FvH4_2g18171 FvH4_3g27581 FvH4_4g15802 FvH4_5g19941 FvH4_5g31091
prunus_persica	Prupe.2G091000_v2.0.a1 Prupe.3G154400_v2.0.a1 Prupe.4G246500_v2.0.a1 Prupe.5G036100_v2.0.a1 Prupe.6G155600_v2.0.a1
pyrus_communis	pycom04g09660
rosa_multiflora	Rmu_sc0000560.1_g000009 Rmu_sc0000904.1_g000004 Rmu_sc0001545.1_g000022 Rmu_sc0001889.1_g000029 Rmu_sc0004268.1_g000012 Rmu_sc0004950.1_g000005 Rmu_sc0005030.1_g000001 Rmu_sc0005030.1_g000002
rosa_rugosa	Rorug02G0462700 Rorug03G0258300 Rorug03G0294500 Rorug05G0293500
rosa_wichuraiana	Rw4G005940 Rw5G008400 Rw5G027240 Rw5G038170

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	2 cut(s)	648, 1155
Acc16I	TGCGCA	1 cut(s)	264
Acc36I	ACCTGC	1 cut(s)	56
AccB7I	CCANNNNNTGG	2 cut(s)	902, 1048
AccI	GTMKAC	2 cut(s)	175, 1015
AciI	CCGC	2 cut(s)	370, 1096
AcsI	RAATTY	4 cut(s)	1074, 1124, 1293, 1421
AfaI	GTAC	1 cut(s)	1372
AfiI	CCNNNNNNNGG	3 cut(s)	119, 902, 1048
AflIII	ACRYGT	2 cut(s)	277, 1144
AgsI	TTSAA	9 cut(s)	43, 98, 134, 384, 566, 600, 1001, 1171, 1223
AjnI	CCWGG	1 cut(s)	992
AloI	GAACNNNNNNTCC	2 cut(s)	364, 396
AluBI	AGCT	5 cut(s)	497, 560, 782, 1004, 1070
AluI	AGCT	5 cut(s)	497, 560, 782, 1004, 1070
Alw21I	GWGCWC	1 cut(s)	616
Alw26I	GTCTC	3 cut(s)	140, 953, 983
ApeKI	GCWGC	2 cut(s)	539, 1326
ApoI	RAATTY	4 cut(s)	1074, 1124, 1293, 1421
ArsI	GACNNNNNNTTYG	2 cut(s)	872, 904
Asp700I	GAANNNNTTC	2 cut(s)	379, 561
AspLEI	GCGC	1 cut(s)	265
AsuHPI	GGTGA	4 cut(s)	65, 102, 1085, 1142
AsuII	TTCGAA	2 cut(s)	14, 202
BaeGI	GKGCMC	1 cut(s)	946
Bbv12I	GWGCWC	1 cut(s)	616
BbvI	GCAGC	2 cut(s)	551, 1338
BccI	CCATC	4 cut(s)	14, 767, 811, 921
BciT130I	CCWGG	1 cut(s)	994
BcoDI	GTCTC	3 cut(s)	140, 953, 983
BfaI	CTAG	5 cut(s)	83, 219, 408, 807, 1176
BfuAI	ACCTGC	1 cut(s)	56
BisI	GCNGC	2 cut(s)	540, 1327
BlsI	GCNGC	2 cut(s)	541, 1328
Bme1390I	CCNGG	1 cut(s)	994
BmiI	GGNNCC	1 cut(s)	1311
BmrFI	CCNGG	1 cut(s)	994
BmsI	GCATC	2 cut(s)	274, 682
BpmI	CTGGAG	1 cut(s)	924
Bpu14I	TTCGAA	2 cut(s)	14, 202
BsaI	GGTCTC	1 cut(s)	983
BsaXI	ACNNNNNCTCC	2 cut(s)	364, 394
Bsc4I	CCNNNNNNNGG	3 cut(s)	119, 902, 1048
Bse1I	ACTGG	4 cut(s)	361, 760, 907, 1313
Bse3DI	GCAATG	3 cut(s)	31, 1059, 1235
BseBI	CCWGG	1 cut(s)	994
BseGI	GGATG	6 cut(s)	307, 510, 822, 844, 944, 1018
BseLI	CCNNNNNNNGG	3 cut(s)	119, 902, 1048
BseMI	GCAATG	3 cut(s)	31, 1059, 1235
BseMII	CTCAG	1 cut(s)	1406
BseNI	ACTGG	4 cut(s)	361, 760, 907, 1313
BseRI	GAGGAG	1 cut(s)	1262
BseSI	GKGCMC	1 cut(s)	946
BseXI	GCAGC	2 cut(s)	551, 1338
BsiHKAI	GWGCWC	1 cut(s)	616
BslFI	GGGAC	1 cut(s)	653
BslI	CCNNNNNNNGG	3 cut(s)	119, 902, 1048
BsmAI	GTCTC	3 cut(s)	140, 953, 983
BsmBI	CGTCTC	1 cut(s)	953
BsmFI	GGGAC	1 cut(s)	653
Bso31I	GGTCTC	1 cut(s)	983
Bsp119I	TTCGAA	2 cut(s)	14, 202
Bsp1286I	GDGCHC	2 cut(s)	616, 946
Bsp143I	GATC	2 cut(s)	221, 809
BspACI	CCGC	2 cut(s)	370, 1096
BspCNI	CTCAG	1 cut(s)	1407
BspHI	TCATGA	1 cut(s)	424
BspLI	GGNNCC	1 cut(s)	1311
BspMI	ACCTGC	1 cut(s)	56
BspQI	GCTCTTC	1 cut(s)	1218
BspT104I	TTCGAA	2 cut(s)	14, 202
BspTNI	GGTCTC	1 cut(s)	983
BsrDI	GCAATG	3 cut(s)	31, 1059, 1235
BsrI	ACTGG	4 cut(s)	361, 760, 907, 1313
BssMI	GATC	2 cut(s)	221, 809
Bst2UI	CCWGG	1 cut(s)	994
Bst4CI	ACNGT	4 cut(s)	228, 388, 644, 744
Bst6I	CTCTTC	4 cut(s)	138, 315, 359, 1218
BstBI	TTCGAA	2 cut(s)	14, 202
BstC8I	GCNNGC	1 cut(s)	729
BstDEI	CTNAG	1 cut(s)	1415
BstENI	CCTNNNNNAGG	1 cut(s)	117
BstF5I	GGATG	6 cut(s)	307, 510, 822, 844, 944, 1018
BstHHI	GCGC	1 cut(s)	265
BstKTI	GATC	2 cut(s)	224, 812
BstMAI	GTCTC	3 cut(s)	140, 953, 983
BstMBI	GATC	2 cut(s)	221, 809
BstNI	CCWGG	1 cut(s)	994
BstNSI	RCATGY	3 cut(s)	281, 886, 1148
BstSCI	CCNGG	1 cut(s)	992
BstSLI	GKGCMC	1 cut(s)	946
BstV1I	GCAGC	2 cut(s)	551, 1338
BstXI	CCANNNNNNTGG	1 cut(s)	356
BtgZI	GCGATG	1 cut(s)	72
BtsCI	GGATG	6 cut(s)	307, 510, 822, 844, 944, 1018
BtsIMutI	CAGTG	3 cut(s)	469, 767, 1035
BveI	ACCTGC	1 cut(s)	56
Cac8I	GCNNGC	1 cut(s)	729
CciI	TCATGA	1 cut(s)	424
CfoI	GCGC	1 cut(s)	265
Csp6I	GTAC	1 cut(s)	1371
CviAII	CATG	8 cut(s)	278, 283, 307, 425, 883, 1145, 1180, 1253
CviJI	RGCY	8 cut(s)	407, 497, 560, 782, 997, 1004, 1070, 1276
CviKI_1	RGCY	8 cut(s)	407, 497, 560, 782, 997, 1004, 1070, 1276
CviQI	GTAC	1 cut(s)	1371
DdeI	CTNAG	1 cut(s)	1415
DpnI	GATC	2 cut(s)	223, 811
DpnII	GATC	2 cut(s)	221, 809
Eam1104I	CTCTTC	4 cut(s)	138, 315, 359, 1218
EarI	CTCTTC	4 cut(s)	138, 315, 359, 1218
EciI	GGCGGA	1 cut(s)	385
Eco31I	GGTCTC	1 cut(s)	983
EcoNI	CCTNNNNNAGG	1 cut(s)	117
EcoRII	CCWGG	1 cut(s)	992
EcoT22I	ATGCAT	1 cut(s)	1381
Esp3I	CGTCTC	1 cut(s)	953
FaeI	CATG	8 cut(s)	281, 286, 310, 428, 886, 1148, 1183, 1256
FaqI	GGGAC	1 cut(s)	653
FatI	CATG	8 cut(s)	277, 282, 306, 424, 882, 1144, 1179, 1252
FauNDI	CATATG	1 cut(s)	528
FblI	GTMKAC	2 cut(s)	175, 1015
Fnu4HI	GCNGC	2 cut(s)	540, 1327
FokI	GGATG	6 cut(s)	314, 517, 829, 851, 951, 1005
Fsp4HI	GCNGC	2 cut(s)	540, 1327
FspAI	RTGCGCAY	1 cut(s)	264
FspBI	CTAG	5 cut(s)	83, 219, 408, 807, 1176
FspI	TGCGCA	1 cut(s)	264
GlaI	GCGC	1 cut(s)	264
GluI	GCNGC	2 cut(s)	540, 1327
GsuI	CTGGAG	1 cut(s)	924
HhaI	GCGC	1 cut(s)	265
Hin1II	CATG	8 cut(s)	281, 286, 310, 428, 886, 1148, 1183, 1256
Hin6I	GCGC	1 cut(s)	263
HinP1I	GCGC	1 cut(s)	263
HincII	GTYRAC	4 cut(s)	9, 176, 910, 1016
HindII	GTYRAC	4 cut(s)	9, 176, 910, 1016
HindIII	AAGCTT	1 cut(s)	558
HinfI	GANTC	5 cut(s)	33, 193, 289, 803, 1301
HpaI	GTTAAC	2 cut(s)	9, 910
HphI	GGTGA	4 cut(s)	65, 102, 1085, 1142
Hpy166II	GTNNAC	5 cut(s)	9, 176, 275, 910, 1016
Hpy188I	TCNGA	3 cut(s)	867, 1165, 1416
Hpy188III	TCNNGA	6 cut(s)	83, 219, 425, 807, 1171, 1298
Hpy8I	GTNNAC	5 cut(s)	9, 176, 275, 910, 1016
HpyAV	CCTTC	4 cut(s)	147, 176, 606, 1361
HpyCH4III	ACNGT	4 cut(s)	228, 388, 644, 744
HpyCH4IV	ACGT	1 cut(s)	663
HpyCH4V	TGCA	6 cut(s)	286, 539, 695, 952, 1104, 1379
HpyF3I	CTNAG	1 cut(s)	1415
HpySE526I	ACGT	1 cut(s)	663
Hsp92II	CATG	8 cut(s)	281, 286, 310, 428, 886, 1148, 1183, 1256
HspAI	GCGC	1 cut(s)	263
KspAI	GTTAAC	2 cut(s)	9, 910
Kzo9I	GATC	2 cut(s)	221, 809
LguI	GCTCTTC	1 cut(s)	1218
LmnI	GCTCC	2 cut(s)	1061, 1249
Lsp1109I	GCAGC	2 cut(s)	551, 1338
LweI	GCATC	2 cut(s)	274, 682
MaeI	CTAG	5 cut(s)	83, 219, 408, 807, 1176
MaeII	ACGT	1 cut(s)	663
MalI	GATC	2 cut(s)	223, 811
MboI	GATC	2 cut(s)	221, 809
MhlI	GDGCHC	2 cut(s)	616, 946
MlyI	GAGTC	2 cut(s)	187, 283
MmeI	TCCRAC	2 cut(s)	10, 660
Mph1103I	ATGCAT	1 cut(s)	1381
MroXI	GAANNNNTTC	2 cut(s)	379, 561
MseI	TTAA	7 cut(s)	8, 104, 390, 551, 630, 656, 909
MslI	CAYNNNNRTG	1 cut(s)	976
MspR9I	CCNGG	1 cut(s)	994
MvaI	CCWGG	1 cut(s)	994
NdeI	CATATG	1 cut(s)	528
NdeII	GATC	2 cut(s)	221, 809
NlaIII	CATG	8 cut(s)	281, 286, 310, 428, 886, 1148, 1183, 1256
NlaIV	GGNNCC	1 cut(s)	1311
NmuCI	GTSAC	8 cut(s)	71, 238, 344, 464, 487, 844, 1091, 1140
NsbI	TGCGCA	1 cut(s)	264
NsiI	ATGCAT	1 cut(s)	1381
NspI	RCATGY	3 cut(s)	281, 886, 1148
NspV	TTCGAA	2 cut(s)	14, 202
PagI	TCATGA	1 cut(s)	424
PciI	ACATGT	2 cut(s)	277, 1144
PciSI	GCTCTTC	1 cut(s)	1218
PdmI	GAANNNNTTC	2 cut(s)	379, 561
PfeI	GAWTC	3 cut(s)	33, 803, 1301
PflMI	CCANNNNNTGG	2 cut(s)	902, 1048
PkrI	GCNGC	2 cut(s)	541, 1328
PleI	GAGTC	2 cut(s)	187, 283
PpsI	GAGTC	2 cut(s)	187, 283
PscI	ACATGT	2 cut(s)	277, 1144
PsiI	TTATAA	2 cut(s)	648, 1155
Psp6I	CCWGG	1 cut(s)	992
PspGI	CCWGG	1 cut(s)	992
PspN4I	GGNNCC	1 cut(s)	1311
PsrI	GAACNNNNNNTAC	2 cut(s)	190, 222
RsaI	GTAC	1 cut(s)	1372
RsaNI	GTAC	1 cut(s)	1371
RseI	CAYNNNNRTG	1 cut(s)	976
SalI	GTCGAC	2 cut(s)	174, 1014
SapI	GCTCTTC	1 cut(s)	1218
SaqAI	TTAA	7 cut(s)	8, 104, 390, 551, 630, 656, 909
SatI	GCNGC	2 cut(s)	540, 1327
Sau3AI	GATC	2 cut(s)	221, 809
SchI	GAGTC	2 cut(s)	187, 283
ScrFI	CCNGG	1 cut(s)	994
SduI	GDGCHC	2 cut(s)	616, 946
SfaNI	GCATC	2 cut(s)	274, 682
SfuI	TTCGAA	2 cut(s)	14, 202
SmiMI	CAYNNNNRTG	1 cut(s)	976
SsiI	CCGC	2 cut(s)	370, 1096
SspI	AATATT	1 cut(s)	830
SspMI	CTAG	5 cut(s)	83, 219, 408, 807, 1176
StyD4I	CCNGG	1 cut(s)	992
TaaI	ACNGT	4 cut(s)	228, 388, 644, 744
TaiI	ACGT	1 cut(s)	666
TaqI	TCGA	6 cut(s)	14, 175, 202, 518, 852, 1015
TfiI	GAWTC	3 cut(s)	33, 803, 1301
Tru1I	TTAA	7 cut(s)	8, 104, 390, 551, 630, 656, 909
Tru9I	TTAA	7 cut(s)	8, 104, 390, 551, 630, 656, 909
TscAI	CASTG	3 cut(s)	469, 767, 1042
TseFI	GTSAC	8 cut(s)	71, 238, 344, 464, 487, 844, 1091, 1140
TseI	GCWGC	2 cut(s)	539, 1326
Tsp45I	GTSAC	8 cut(s)	71, 238, 344, 464, 487, 844, 1091, 1140
TspGWI	ACGGA	1 cut(s)	977
TspRI	CASTG	3 cut(s)	469, 767, 1042
Van91I	CCANNNNNTGG	2 cut(s)	902, 1048
XagI	CCTNNNNNAGG	1 cut(s)	117
XapI	RAATTY	4 cut(s)	1074, 1124, 1293, 1421
XbaI	TCTAGA	3 cut(s)	82, 218, 806
XceI	RCATGY	3 cut(s)	281, 886, 1148
XmiI	GTMKAC	2 cut(s)	175, 1015
XmnI	GAANNNNTTC	2 cut(s)	379, 561
XspI	CTAG	5 cut(s)	83, 219, 408, 807, 1176
Zsp2I	ATGCAT	1 cut(s)	1381

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