Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0013640

Physical Location & Seq

Genomic Coordinates Reverse (-)

10259647 .. 10262884

Gene Structure 3238 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG113200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1266 bp

ATGCAACCGCTGTGCTATGTAAATGGGGATATTGCTCACTTTGACTATTGTGACAAGGATAATATGTCTATGTGTGAGATTATTGCAATGGGAAAAGAATTAGGTCATCATGGCATATTAAATTATTGGTATAAGTTGCCTGGGATGGGAATTGGAGCTGCCATGAGTTTGTTAAAAAGGGATGATGATGTTGTTGATATGGTGGCTTTTGTGCCAGATGTGAGGATAATTGAAGTGTACTTGGAGCATATACTAGACTCTGGTCCTTGCGACATTGCAAACTTAGGTTGGGACCTCAATGACTTTGGAATAGACCTCAGTAAAAGTTCTGATGTGGGAGCTAGGAAGAGAAAAAGTATTGTGATTGAGGAGTTAGGGTTAGGTGAAGATGACAATGCTTATCATATAACCCAGACTGAATTAGCTAATGACAAGGATGACAGTGATAATGACAATTTAGATGGAGACTATCATCCTGAAGCTGATTTTGTTGATAGTGATTACAGTGAGGATGATGATTGTTCTGACGAAGTTGGTTATAATGATGGTACAGCAAGTAGTATTGATGCTGAAGCTACTGCCAAAGATGGTGGAAATACTCGTGTCAATGCAGGTGTTAATGACAGTGAAACTAATTGTGGGAGTGATGCAAATGTTACAAATAATTTTATGCATAATATGGAAATTGGAAGTTGGGATCTGGTGATGAATAATATTCAATTGGAAGATGTAGAAGAGGAAGAAGACCATCTTTCAAATGAGGAATTAAGAAGCGTCCATGATTCTGATGATGAAAATAATTCTATGAGAAAAAGGGAGCCAGAGTTTAACCCTGAAACTGATATGAAGGACCCCCAGTTTGAGTTAGGGATGTTATTTATTGATTGTCATGTTTTTAGAGCCGCCATTAGAGAGTATGCAATGTTGCACGGTTACGAAATGAGATGGAAGAGGAATGAGGAATTTAAGTTGAAGGTTTTATGCAAAGGCGAATTATGCCCTTGGCAAATTTATGCTGGAAAGAGAGCTTCTAATGATGATACATTGCAGCTGCAACCAATAACAACTTCAGTTCCTCCATGTACATCTGCACCACTTTCCTCAACTTCTACAAGAATTGCTCCACCAACACCATCCACTACTCTAGCACCTCCACAACGTAATGTTAGTAGAAAATCATCAACGGCCTCTACTCAGGCAAGCCAAACATCGAAGGCTCGTACGTCTAATGTTGGGAAAAGAGGAAGACCACCAAAGAAGGCATAA

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

DBD_Tnp_Mut MULE SWIM

Protein Analysis

421

Amino Acids

46.83

Weight (kDa)

4.49

Isoelectric Point (pI)

45.26

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PB1-like	PF26130	3 - 83	5.9e-12	PB1-like domain
DBD_Tnp_Mut	PF03108	286 - 344	3.3e-09	MuDR family transposase

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: OG0013640)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_3g21022 FvH4_4g33231
pyrus_communis	pycom16g21430 pycom16g26140
rosa_laevigata	RLG00000032953
rosa_multiflora	Rmu_sc0006269.1_g000023
rosa_roxburghii	Rroxscaffold_5G00358510 Rroxscaffold_6G00397970 Rroxscaffold_7G00172770
rosa_rugosa	Rorug02G0235100
rosa_samantha	Rh2CG306600 Rh2DG342900 Rh4AG104100 Rh4AG115200 Rh4CG112400 Rh5DG113200 Rh6CG362000
rosa_wichuraiana	Rw1G022480

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	540
AarI	CACCTGC	1 cut(s)	602
Acc36I	ACCTGC	1 cut(s)	602
AciI	CCGC	2 cut(s)	8, 903
AclWI	GGATC	1 cut(s)	705
AcsI	RAATTY	2 cut(s)	962, 1008
AcuI	CTGAAG	3 cut(s)	498, 591, 1053
AfaI	GTAC	4 cut(s)	239, 550, 1084, 1222
AfiI	CCNNNNNNNGG	1 cut(s)	146
AgsI	TTSAA	4 cut(s)	233, 719, 756, 973
AjnI	CCWGG	1 cut(s)	139
AjuI	GAANNNNNNNTTGG	2 cut(s)	1051, 1083
AluBI	AGCT	7 cut(s)	158, 341, 425, 482, 575, 1028, 1051
AluI	AGCT	7 cut(s)	158, 341, 425, 482, 575, 1028, 1051
Alw26I	GTCTC	1 cut(s)	459
AlwI	GGATC	1 cut(s)	705
AoxI	GGCC	1 cut(s)	1185
ApeKI	GCWGC	3 cut(s)	158, 1048, 1051
ApoI	RAATTY	2 cut(s)	962, 1008
ArsI	GACNNNNNNTTYG	2 cut(s)	842, 874
AspS9I	GGNCC	3 cut(s)	263, 292, 850
AsuHPI	GGTGA	2 cut(s)	395, 715
AvaII	GGWCC	3 cut(s)	263, 292, 850
BauI	CACGAG	1 cut(s)	600
BbsI	GAAGAC	2 cut(s)	750, 1252
BbvI	GCAGC	3 cut(s)	145, 1038, 1060
BccI	CCATC	7 cut(s)	139, 455, 539, 581, 756, 939, 1141
BceAI	ACGGC	1 cut(s)	1200
BciT130I	CCWGG	1 cut(s)	141
BcoDI	GTCTC	1 cut(s)	459
BfaI	CTAG	3 cut(s)	254, 342, 1145
BfuAI	ACCTGC	1 cut(s)	602
BisI	GCNGC	4 cut(s)	159, 903, 1049, 1052
BlsI	GCNGC	4 cut(s)	160, 904, 1050, 1053
Bme1390I	CCNGG	1 cut(s)	141
Bme18I	GGWCC	3 cut(s)	263, 292, 850
BmgT120I	GGNCC	3 cut(s)	263, 292, 850
BmiI	GGNNCC	3 cut(s)	293, 819, 852
BmrFI	CCNGG	1 cut(s)	141
BmrI	ACTGGG	1 cut(s)	850
BmsI	GCATC	2 cut(s)	556, 637
BmuI	ACTGGG	1 cut(s)	850
BoxI	GACNNNNGTC	1 cut(s)	261
BpiI	GAAGAC	2 cut(s)	750, 1252
BsaJI	CCNNGG	2 cut(s)	140, 1001
BsaXI	ACNNNNNCTCC	4 cut(s)	362, 392, 809, 839
Bsc4I	CCNNNNNNNGG	1 cut(s)	146
Bse1I	ACTGG	1 cut(s)	856
Bse3DI	GCAATG	4 cut(s)	93, 273, 927, 1043
BseBI	CCWGG	1 cut(s)	141
BseDI	CCNNGG	2 cut(s)	140, 1001
BseGI	GGATG	7 cut(s)	150, 187, 442, 472, 517, 876, 1133
BseLI	CCNNNNNNNGG	1 cut(s)	146
BseMI	GCAATG	4 cut(s)	93, 273, 927, 1043
BseMII	CTCAG	2 cut(s)	331, 1208
BseNI	ACTGG	1 cut(s)	856
BseRI	GAGGAG	1 cut(s)	383
BseXI	GCAGC	3 cut(s)	145, 1038, 1060
BsgI	GTGCAG	1 cut(s)	1074
BshFI	GGCC	1 cut(s)	1187
BsiWI	CGTACG	1 cut(s)	1220
BslFI	GGGAC	1 cut(s)	305
BslI	CCNNNNNNNGG	1 cut(s)	146
BsmAI	GTCTC	1 cut(s)	459
BsmFI	GGGAC	1 cut(s)	305
BsnI	GGCC	1 cut(s)	1187
Bsp1407I	TGTACA	1 cut(s)	1082
Bsp143I	GATC	1 cut(s)	697
BspACI	CCGC	2 cut(s)	8, 903
BspANI	GGCC	1 cut(s)	1187
BspCNI	CTCAG	2 cut(s)	330, 1207
BspLI	GGNNCC	3 cut(s)	293, 819, 852
BspMI	ACCTGC	1 cut(s)	602
BspPI	GGATC	1 cut(s)	705
BsrDI	GCAATG	4 cut(s)	93, 273, 927, 1043
BsrGI	TGTACA	1 cut(s)	1082
BsrI	ACTGG	1 cut(s)	856
BssECI	CCNNGG	2 cut(s)	140, 1001
BssMI	GATC	1 cut(s)	697
BssSI	CACGAG	1 cut(s)	600
BssT1I	CCWWGG	1 cut(s)	1001
Bst2BI	CACGAG	1 cut(s)	600
Bst2UI	CCWGG	1 cut(s)	141
Bst4CI	ACNGT	4 cut(s)	443, 506, 626, 932
Bst6I	CTCTTC	3 cut(s)	341, 729, 944
BstAUI	TGTACA	1 cut(s)	1082
BstC8I	GCNNGC	1 cut(s)	1201
BstDEI	CTNAG	3 cut(s)	283, 317, 1194
BstF5I	GGATG	7 cut(s)	150, 187, 442, 472, 517, 876, 1133
BstKTI	GATC	1 cut(s)	700
BstMAI	GTCTC	1 cut(s)	459
BstMBI	GATC	1 cut(s)	697
BstMWI	GCNNNNNNNGC	1 cut(s)	996
BstNI	CCWGG	1 cut(s)	141
BstPAI	GACNNNNGTC	1 cut(s)	261
BstSCI	CCNGG	1 cut(s)	139
BstV1I	GCAGC	3 cut(s)	145, 1038, 1060
BstV2I	GAAGAC	2 cut(s)	750, 1252
BstX2I	RGATCY	1 cut(s)	697
BstYI	RGATCY	1 cut(s)	697
BsuRI	GGCC	1 cut(s)	1187
BtsCI	GGATG	7 cut(s)	150, 187, 442, 472, 517, 876, 1133
BtsIMutI	CAGTG	3 cut(s)	448, 511, 631
BveI	ACCTGC	1 cut(s)	602
Cac8I	GCNNGC	1 cut(s)	1201
Cfr13I	GGNCC	3 cut(s)	263, 292, 850
CseI	GACGC	1 cut(s)	763
Csp6I	GTAC	4 cut(s)	238, 549, 1083, 1221
CspCI	CAANNNNNGTGG	2 cut(s)	571, 606
CviAII	CATG	5 cut(s)	110, 163, 779, 890, 1080
CviQI	GTAC	4 cut(s)	238, 549, 1083, 1221
DdeI	CTNAG	3 cut(s)	283, 317, 1194
DpnI	GATC	1 cut(s)	699
DpnII	GATC	1 cut(s)	697
Eam1104I	CTCTTC	3 cut(s)	341, 729, 944
EarI	CTCTTC	3 cut(s)	341, 729, 944
Eco130I	CCWWGG	1 cut(s)	1001
Eco47I	GGWCC	3 cut(s)	263, 292, 850
Eco57I	CTGAAG	3 cut(s)	498, 591, 1053
EcoO109I	RGGNCCY	2 cut(s)	292, 850
EcoRII	CCWGG	1 cut(s)	139
EcoT14I	CCWWGG	1 cut(s)	1001
EcoT22I	ATGCAT	1 cut(s)	675
ErhI	CCWWGG	1 cut(s)	1001
FaeI	CATG	5 cut(s)	113, 166, 782, 893, 1083
FalI	AAGNNNNNCTT	2 cut(s)	735, 767
FaqI	GGGAC	1 cut(s)	305
FatI	CATG	5 cut(s)	109, 162, 778, 889, 1079
Fnu4HI	GCNGC	4 cut(s)	159, 903, 1049, 1052
FokI	GGATG	7 cut(s)	157, 194, 449, 459, 524, 883, 1120
Fsp4HI	GCNGC	4 cut(s)	159, 903, 1049, 1052
FspBI	CTAG	3 cut(s)	254, 342, 1145
GluI	GCNGC	4 cut(s)	159, 903, 1049, 1052
HaeIII	GGCC	1 cut(s)	1187
HgaI	GACGC	1 cut(s)	763
Hin1II	CATG	5 cut(s)	113, 166, 782, 893, 1083
HinfI	GANTC	2 cut(s)	257, 782
HphI	GGTGA	2 cut(s)	395, 715
Hpy166II	GTNNAC	1 cut(s)	238
Hpy188I	TCNGA	3 cut(s)	331, 526, 787
Hpy188III	TCNNGA	1 cut(s)	476
Hpy8I	GTNNAC	1 cut(s)	238
HpyAV	CCTTC	4 cut(s)	841, 967, 1207, 1252
HpyCH4III	ACNGT	4 cut(s)	443, 506, 626, 932
HpyCH4IV	ACGT	2 cut(s)	1159, 1223
HpyF10VI	GCNNNNNNNGC	1 cut(s)	996
HpyF3I	CTNAG	3 cut(s)	283, 317, 1194
HpySE526I	ACGT	2 cut(s)	1159, 1223
Hsp92II	CATG	5 cut(s)	113, 166, 782, 893, 1083
Kzo9I	GATC	1 cut(s)	697
LmnI	GCTCC	5 cut(s)	155, 244, 338, 817, 1126
Lsp1109I	GCAGC	3 cut(s)	145, 1038, 1060
LweI	GCATC	2 cut(s)	556, 637
MaeI	CTAG	3 cut(s)	254, 342, 1145
MaeII	ACGT	2 cut(s)	1159, 1223
MaeIII	GTNAC	3 cut(s)	50, 655, 932
MalI	GATC	1 cut(s)	699
MboI	GATC	1 cut(s)	697
MboII	GAAGA	8 cut(s)	358, 398, 737, 746, 752, 755, 961, 1257
MfeI	CAATTG	1 cut(s)	719
MflI	RGATCY	1 cut(s)	697
MlyI	GAGTC	1 cut(s)	251
Mph1103I	ATGCAT	1 cut(s)	675
MseI	TTAA	6 cut(s)	119, 173, 618, 767, 828, 966
MspA1I	CMGCKG	2 cut(s)	10, 1051
MspR9I	CCNGG	1 cut(s)	141
MunI	CAATTG	1 cut(s)	719
MvaI	CCWGG	1 cut(s)	141
MwoI	GCNNNNNNNGC	1 cut(s)	996
NdeII	GATC	1 cut(s)	697
NlaIII	CATG	5 cut(s)	113, 166, 782, 893, 1083
NlaIV	GGNNCC	3 cut(s)	293, 819, 852
NmuCI	GTSAC	1 cut(s)	50
NsiI	ATGCAT	1 cut(s)	675
PaqCI	CACCTGC	1 cut(s)	602
PfeI	GAWTC	1 cut(s)	782
Pfl23II	CGTACG	1 cut(s)	1220
PkrI	GCNGC	4 cut(s)	160, 904, 1050, 1053
PleI	GAGTC	1 cut(s)	251
PpsI	GAGTC	1 cut(s)	251
PpuMI	RGGWCCY	2 cut(s)	292, 850
PshAI	GACNNNNGTC	1 cut(s)	261
PsiI	TTATAA	1 cut(s)	540
Psp5II	RGGWCCY	2 cut(s)	292, 850
Psp6I	CCWGG	1 cut(s)	139
PspGI	CCWGG	1 cut(s)	139
PspLI	CGTACG	1 cut(s)	1220
PspN4I	GGNNCC	3 cut(s)	293, 819, 852
PspPI	GGNCC	3 cut(s)	263, 292, 850
PspPPI	RGGWCCY	2 cut(s)	292, 850
PsuI	RGATCY	1 cut(s)	697
PvuII	CAGCTG	1 cut(s)	1051
RsaI	GTAC	4 cut(s)	239, 550, 1084, 1222
RsaNI	GTAC	4 cut(s)	238, 549, 1083, 1221
SaqAI	TTAA	6 cut(s)	119, 173, 618, 767, 828, 966
SatI	GCNGC	4 cut(s)	159, 903, 1049, 1052
Sau3AI	GATC	1 cut(s)	697
Sau96I	GGNCC	3 cut(s)	263, 292, 850
SchI	GAGTC	1 cut(s)	251
ScrFI	CCNGG	1 cut(s)	141
SfaNI	GCATC	2 cut(s)	556, 637
SinI	GGWCC	3 cut(s)	263, 292, 850
SsiI	CCGC	2 cut(s)	8, 903
SspI	AATATT	1 cut(s)	715
SspMI	CTAG	3 cut(s)	254, 342, 1145
StyD4I	CCNGG	1 cut(s)	139
StyI	CCWWGG	1 cut(s)	1001
TaaI	ACNGT	4 cut(s)	443, 506, 626, 932
TaiI	ACGT	2 cut(s)	1162, 1226
TaqI	TCGA	1 cut(s)	1211
TatI	WGTACW	2 cut(s)	237, 1082
TauI	GCSGC	1 cut(s)	905
TfiI	GAWTC	1 cut(s)	782
Tru1I	TTAA	6 cut(s)	119, 173, 618, 767, 828, 966
Tru9I	TTAA	6 cut(s)	119, 173, 618, 767, 828, 966
TscAI	CASTG	3 cut(s)	448, 511, 631
TseFI	GTSAC	1 cut(s)	50
TseI	GCWGC	3 cut(s)	158, 1048, 1051
Tsp45I	GTSAC	1 cut(s)	50
TspDTI	ATGAA	3 cut(s)	722, 807, 860
TspRI	CASTG	3 cut(s)	448, 511, 631
VpaK11BI	GGWCC	3 cut(s)	263, 292, 850
XapI	RAATTY	2 cut(s)	962, 1008
XspI	CTAG	3 cut(s)	254, 342, 1145
Zsp2I	ATGCAT	1 cut(s)	675

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