Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7A

Orthogroup ID

OG0009292

Physical Location & Seq

Genomic Coordinates Reverse (-)

56080689 .. 56087836

Gene Structure 7148 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7AG417700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1167 bp

ATGCTTAGAGTGACGCCAATGGCAATGACCTCTCTACTCTCCCACATCACCTCTCTTTCTCTCCCTCTACCTCTCAAACCCCCCTCCTCCTCTCTTTTCCCTCATTCTGCAAAACCCACAAAAACCACCCTCTTCCTCAGACCCTTCTCTATCTCCTCTTCTTCTTCCTCCTCAGACCCTCCTCCACACAGCTTCAATGGAGATATTGGGCCTTACTTGTCCTGTTCCATGCCCCATAAGCGCCTTAAAGTTGCCGTCTTGCTTAGCGGCGGTGTCGATAGCAGTGTCGCCCTCCGTCTCCTCCACGCCGCCGGTCACTCCTGCACCGCCTTCTACCTCAAAATTTGGTTTCAAGAAGGCTTTGAGAACTTTTGGTCAGAATGCCCGTGGGAAGAAGATTTGGATTTTGCAAAAGCTGTCTGTAATCAGGTTGATGTCCCACTAGAAGTCGTGCATTTGACAGATGAATATTGGAAAAATGTGGTGTCCTACATTATTGAAGAGTATCGATGTGGCCGAACTCCTAACCCAGATGTTCTTTGCAATACAAGAATAAAATTTGGTGTATTCATGGATGCCATTGGCAGTATGGAGTTTGACTATGTTGCAAGTGGACATTATGCAAAAGTTGTCCACCCATCTGCAGATCAAATGGATAAGGATTCTACTTTGGAACTATCAGAAGACATGGTGAAGGATCAGACATACTTCCTTTCACATCTTTCTCAGGACCAGCTTAAGAGATTAATATTTCCACTTGGTTGTCTGTCGAAGGATAAAGTTCGTAAGCTTGCCACGAAGTTTGATCTGCCTAACAAAGAGAGAAAGGATTCACAAGGAATTTGCTTTCTTGGTAAGATAAGGTTCAGTGACTTTATTGGAAGACACATAGGGGAGAAGGAAGGTGTAATATTGGAAGCAGAGACAGGAGATCTCCTTGGAAAACATCAAGGCTTTTGGTTCTATACAATCGGTCAACGTCAAGGTCTGCGGCTCCCAGGAGGACCCTGGTATGTTGTTGAGAAGGATGTAAAAAACAATGTGGTTTTTGTTTCAAGAAATTACTTTTCAGTTGACAAAAGAAGGCGCCTGTTCCGTGTGGGATCCTTGAAATGGCTACAGGGGTTGCCCTCAGACCAGATCAGTCAGCTACAGTGCAAGGTATAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

ko00561 ko00564 ko01100 ko01110 ko04072 map00561 map00564 map01100 map01110 map04072

Pfam Domains

Protein Families

tRNA_Me_trans

Protein Analysis

388

Amino Acids

43.85

Weight (kDa)

8.46

Isoelectric Point (pI)

46.62

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
tRNA_Me_trans	PF03054	83 - 286	1.6e-77	tRNA methyl transferase HUP domain
tRNA_Me_trans_M	PF20259	291 - 353	5e-26	tRNA methyl transferase PRC-barrel domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0009292)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G51310
fragaria_vesca	FvH4_5g33050 FvH4_5g33050 FvH4_5g33050
malus_domestica	MD03G1176400.v1.1 MD11G1196700.v1.1
prunus_persica	Prupe.5G028600_v2.0.a1 Prupe.5G028600_v2.0.a1
pyrus_communis	pycom03g13370 pycom11g16970
rosa_chinensis	RchiOBHm_Chr7g0231131
rosa_laevigata	RLG00000001432
rosa_multiflora	Rmu_co8502733.1_g000001 Rmu_sc0012403.1_g000009
rosa_roxburghii	Rroxscaffold_1G00030590 Rroxscaffold_5G00347570
rosa_rugosa	Rorug07G0264900
rosa_samantha	Rh7AG417700 Rh7BG393900 Rh7CG437700 Rh7DG411700
rosa_wichuraiana	Rw7G034590

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	1086
AciI	CCGC	5 cut(s)	267, 270, 309, 327, 991
AclWI	GGATC	3 cut(s)	705, 1098, 1111
AcoI	YGGCCR	1 cut(s)	514
AcsI	RAATTY	3 cut(s)	342, 557, 840
AcyI	GRCGYC	2 cut(s)	14, 1087
AfiI	CCNNNNNNNGG	1 cut(s)	1113
AflII	CTTAAG	1 cut(s)	737
AgsI	TTSAA	5 cut(s)	196, 353, 500, 1056, 1111
AjnI	CCWGG	2 cut(s)	997, 1007
AluBI	AGCT	5 cut(s)	192, 416, 736, 790, 1150
AluI	AGCT	5 cut(s)	192, 416, 736, 790, 1150
Alw26I	GTCTC	2 cut(s)	302, 917
AlwI	GGATC	3 cut(s)	705, 1098, 1111
AoxI	GGCC	2 cut(s)	209, 514
ApoI	RAATTY	3 cut(s)	342, 557, 840
AseI	ATTAAT	1 cut(s)	746
Asp700I	GAANNNNTTC	1 cut(s)	829
AspLEI	GCGC	2 cut(s)	243, 1089
AspS9I	GGNCC	3 cut(s)	209, 730, 1004
AsuHPI	GGTGA	2 cut(s)	40, 703
AvaII	GGWCC	2 cut(s)	730, 1004
BamHI	GGATCC	1 cut(s)	1103
BanI	GGYRCC	1 cut(s)	1086
BbsI	GAAGAC	2 cut(s)	690, 889
BccI	CCATC	1 cut(s)	646
BceAI	ACGGC	1 cut(s)	239
BciT130I	CCWGG	2 cut(s)	999, 1009
BcoDI	GTCTC	2 cut(s)	302, 917
BfaI	CTAG	1 cut(s)	443
BfmI	CTRYAG	3 cut(s)	642, 1118, 1151
BfoI	RGCGCY	2 cut(s)	244, 1090
BfrI	CTTAAG	1 cut(s)	737
BglII	AGATCT	1 cut(s)	931
BisI	GCNGC	3 cut(s)	268, 309, 992
BlpI	GCTNAGC	1 cut(s)	263
BlsI	GCNGC	3 cut(s)	269, 310, 993
Bme1390I	CCNGG	2 cut(s)	999, 1009
Bme18I	GGWCC	2 cut(s)	730, 1004
BmgT120I	GGNCC	3 cut(s)	209, 730, 1004
BmiI	GGNNCC	4 cut(s)	995, 1006, 1088, 1105
BmrFI	CCNGG	2 cut(s)	999, 1009
BmsI	GCATC	1 cut(s)	565
BpiI	GAAGAC	2 cut(s)	690, 889
Bpu1102I	GCTNAGC	1 cut(s)	263
Bsa29I	ATCGAT	1 cut(s)	508
BsaHI	GRCGYC	2 cut(s)	14, 1087
BsaJI	CCNNGG	4 cut(s)	386, 937, 997, 1007
Bsc4I	CCNNNNNNNGG	1 cut(s)	1113
Bse118I	RCCGGY	1 cut(s)	311
Bse3DI	GCAATG	1 cut(s)	30
BseBI	CCWGG	2 cut(s)	999, 1009
BseCI	ATCGAT	1 cut(s)	508
BseDI	CCNNGG	4 cut(s)	386, 937, 997, 1007
BseGI	GGATG	2 cut(s)	580, 1033
BseLI	CCNNNNNNNGG	1 cut(s)	1113
BseMI	GCAATG	1 cut(s)	30
BseMII	CTCAG	4 cut(s)	151, 186, 740, 1146
BseRI	GAGGAG	6 cut(s)	76, 79, 145, 160, 171, 290
BsgI	GTGCAG	1 cut(s)	307
BshFI	GGCC	2 cut(s)	211, 516
BshNI	GGYRCC	1 cut(s)	1086
BshVI	ATCGAT	1 cut(s)	508
BsiSI	CCGG	1 cut(s)	312
BslFI	GGGAC	1 cut(s)	422
BslI	CCNNNNNNNGG	1 cut(s)	1113
BsmAI	GTCTC	2 cut(s)	302, 917
BsmBI	CGTCTC	1 cut(s)	302
BsmFI	GGGAC	1 cut(s)	422
BsmI	GAATGC	1 cut(s)	386
BsnI	GGCC	2 cut(s)	211, 516
Bsp143I	GATC	6 cut(s)	646, 697, 805, 931, 1103, 1140
Bsp1720I	GCTNAGC	1 cut(s)	263
BspACI	CCGC	5 cut(s)	267, 270, 309, 327, 991
BspANI	GGCC	2 cut(s)	211, 516
BspCNI	CTCAG	4 cut(s)	150, 185, 739, 1145
BspDI	ATCGAT	1 cut(s)	508
BspLI	GGNNCC	4 cut(s)	995, 1006, 1088, 1105
BspMAI	CTGCAG	1 cut(s)	646
BspPI	GGATC	3 cut(s)	705, 1098, 1111
BspT107I	GGYRCC	1 cut(s)	1086
BspTI	CTTAAG	1 cut(s)	737
BsrDI	GCAATG	1 cut(s)	30
BsrFI	RCCGGY	1 cut(s)	311
BssAI	RCCGGY	1 cut(s)	311
BssECI	CCNNGG	4 cut(s)	386, 937, 997, 1007
BssMI	GATC	6 cut(s)	646, 697, 805, 931, 1103, 1140
BssNI	GRCGYC	2 cut(s)	14, 1087
BssT1I	CCWWGG	1 cut(s)	937
Bst2UI	CCWGG	2 cut(s)	999, 1009
Bst4CI	ACNGT	1 cut(s)	1155
Bst6I	CTCTTC	3 cut(s)	137, 163, 495
BstACI	GRCGYC	2 cut(s)	14, 1087
BstAFI	CTTAAG	1 cut(s)	737
BstC8I	GCNNGC	1 cut(s)	792
BstDEI	CTNAG	6 cut(s)	5, 137, 172, 263, 726, 1132
BstDSI	CCRYGG	1 cut(s)	386
BstF5I	GGATG	2 cut(s)	580, 1033
BstH2I	RGCGCY	2 cut(s)	244, 1090
BstHHI	GCGC	2 cut(s)	243, 1089
BstKTI	GATC	6 cut(s)	649, 700, 808, 934, 1106, 1143
BstMAI	GTCTC	2 cut(s)	302, 917
BstMBI	GATC	6 cut(s)	646, 697, 805, 931, 1103, 1140
BstMWI	GCNNNNNNNGC	1 cut(s)	238
BstNI	CCWGG	2 cut(s)	999, 1009
BstSCI	CCNGG	2 cut(s)	997, 1007
BstSFI	CTRYAG	3 cut(s)	642, 1118, 1151
BstV2I	GAAGAC	2 cut(s)	690, 889
BstX2I	RGATCY	2 cut(s)	931, 1103
BstYI	RGATCY	2 cut(s)	931, 1103
Bsu15I	ATCGAT	1 cut(s)	508
BsuRI	GGCC	2 cut(s)	211, 516
BsuTUI	ATCGAT	1 cut(s)	508
BtgI	CCRYGG	1 cut(s)	386
BtsCI	GGATG	2 cut(s)	580, 1033
BtsI	GCAGTG	1 cut(s)	289
BtsIMutI	CAGTG	3 cut(s)	289, 874, 1160
Cac8I	GCNNGC	1 cut(s)	792
CfoI	GCGC	2 cut(s)	243, 1089
Cfr10I	RCCGGY	1 cut(s)	311
Cfr13I	GGNCC	3 cut(s)	209, 730, 1004
ClaI	ATCGAT	1 cut(s)	508
CseI	GACGC	1 cut(s)	22
CspCI	CAANNNNNGTGG	2 cut(s)	784, 819
CviAII	CATG	3 cut(s)	229, 571, 688
DdeI	CTNAG	6 cut(s)	5, 137, 172, 263, 726, 1132
DinI	GGCGCC	1 cut(s)	1088
DpnI	GATC	6 cut(s)	648, 699, 807, 933, 1105, 1142
DpnII	GATC	6 cut(s)	646, 697, 805, 931, 1103, 1140
EaeI	YGGCCR	1 cut(s)	514
Eam1104I	CTCTTC	3 cut(s)	137, 163, 495
EarI	CTCTTC	3 cut(s)	137, 163, 495
Eco130I	CCWWGG	1 cut(s)	937
Eco47I	GGWCC	2 cut(s)	730, 1004
EcoO109I	RGGNCCY	1 cut(s)	1004
EcoRII	CCWGG	2 cut(s)	997, 1007
EcoT14I	CCWWGG	1 cut(s)	937
EgeI	GGCGCC	1 cut(s)	1088
EheI	GGCGCC	1 cut(s)	1088
ErhI	CCWWGG	1 cut(s)	937
Esp3I	CGTCTC	1 cut(s)	302
FaeI	CATG	3 cut(s)	232, 574, 691
FaqI	GGGAC	1 cut(s)	422
FatI	CATG	3 cut(s)	228, 570, 687
Fnu4HI	GCNGC	3 cut(s)	268, 309, 992
FokI	GGATG	2 cut(s)	587, 1040
Fsp4HI	GCNGC	3 cut(s)	268, 309, 992
FspBI	CTAG	1 cut(s)	443
GlaI	GCGC	2 cut(s)	242, 1088
GluI	GCNGC	3 cut(s)	268, 309, 992
HaeII	RGCGCY	2 cut(s)	244, 1090
HaeIII	GGCC	2 cut(s)	211, 516
HapII	CCGG	1 cut(s)	312
HgaI	GACGC	1 cut(s)	22
HhaI	GCGC	2 cut(s)	243, 1089
Hin1I	GRCGYC	2 cut(s)	14, 1087
Hin1II	CATG	3 cut(s)	232, 574, 691
Hin6I	GCGC	2 cut(s)	241, 1087
HinP1I	GCGC	2 cut(s)	241, 1087
HincII	GTYRAC	2 cut(s)	977, 1075
HindII	GTYRAC	2 cut(s)	977, 1075
HindIII	AAGCTT	1 cut(s)	788
HinfI	GANTC	2 cut(s)	662, 830
HpaII	CCGG	1 cut(s)	312
HphI	GGTGA	2 cut(s)	40, 703
Hpy166II	GTNNAC	4 cut(s)	614, 634, 977, 1075
Hpy188I	TCNGA	6 cut(s)	140, 175, 379, 682, 702, 1135
Hpy188III	TCNNGA	3 cut(s)	353, 728, 1056
Hpy8I	GTNNAC	4 cut(s)	614, 634, 977, 1075
HpyAV	CCTTC	9 cut(s)	154, 340, 350, 688, 766, 892, 896, 1018, 1077
HpyCH4III	ACNGT	1 cut(s)	1155
HpyCH4IV	ACGT	1 cut(s)	979
HpyCH4V	TGCA	9 cut(s)	110, 324, 410, 454, 543, 608, 623, 644, 1158
HpyF10VI	GCNNNNNNNGC	1 cut(s)	238
HpyF3I	CTNAG	6 cut(s)	5, 137, 172, 263, 726, 1132
HpySE526I	ACGT	1 cut(s)	979
Hsp92I	GRCGYC	2 cut(s)	14, 1087
Hsp92II	CATG	3 cut(s)	232, 574, 691
HspAI	GCGC	2 cut(s)	241, 1087
KasI	GGCGCC	1 cut(s)	1086
Kzo9I	GATC	6 cut(s)	646, 697, 805, 931, 1103, 1140
LmnI	GCTCC	1 cut(s)	999
LweI	GCATC	1 cut(s)	565
MaeI	CTAG	1 cut(s)	443
MaeII	ACGT	1 cut(s)	979
MaeIII	GTNAC	3 cut(s)	10, 314, 869
MalI	GATC	6 cut(s)	648, 699, 807, 933, 1105, 1142
MboI	GATC	6 cut(s)	646, 697, 805, 931, 1103, 1140
MboII	GAAGA	9 cut(s)	124, 150, 153, 156, 404, 407, 512, 695, 894
MflI	RGATCY	2 cut(s)	931, 1103
MluCI	AATT	4 cut(s)	342, 557, 840, 1060
Mly113I	GGCGCC	1 cut(s)	1087
MroXI	GAANNNNTTC	1 cut(s)	829
MseI	TTAA	3 cut(s)	246, 738, 746
MspCI	CTTAAG	1 cut(s)	737
MspI	CCGG	1 cut(s)	312
MspR9I	CCNGG	2 cut(s)	999, 1009
Mva1269I	GAATGC	1 cut(s)	386
MvaI	CCWGG	2 cut(s)	999, 1009
MwoI	GCNNNNNNNGC	1 cut(s)	238
NarI	GGCGCC	1 cut(s)	1087
NdeII	GATC	6 cut(s)	646, 697, 805, 931, 1103, 1140
NlaIII	CATG	3 cut(s)	232, 574, 691
NlaIV	GGNNCC	4 cut(s)	995, 1006, 1088, 1105
NmuCI	GTSAC	3 cut(s)	10, 314, 869
PcsI	WCGNNNNNNNCGW	1 cut(s)	514
PctI	GAATGC	1 cut(s)	386
PdmI	GAANNNNTTC	1 cut(s)	829
PfeI	GAWTC	2 cut(s)	662, 830
PkrI	GCNGC	3 cut(s)	269, 310, 993
PluTI	GGCGCC	1 cut(s)	1090
PpuMI	RGGWCCY	1 cut(s)	1004
PshBI	ATTAAT	1 cut(s)	746
Psp5II	RGGWCCY	1 cut(s)	1004
Psp6I	CCWGG	2 cut(s)	997, 1007
PspGI	CCWGG	2 cut(s)	997, 1007
PspN4I	GGNNCC	4 cut(s)	995, 1006, 1088, 1105
PspPI	GGNCC	3 cut(s)	209, 730, 1004
PspPPI	RGGWCCY	1 cut(s)	1004
PstI	CTGCAG	1 cut(s)	646
PsuI	RGATCY	2 cut(s)	931, 1103
SaqAI	TTAA	3 cut(s)	246, 738, 746
SatI	GCNGC	3 cut(s)	268, 309, 992
Sau3AI	GATC	6 cut(s)	646, 697, 805, 931, 1103, 1140
Sau96I	GGNCC	3 cut(s)	209, 730, 1004
ScrFI	CCNGG	2 cut(s)	999, 1009
SfaNI	GCATC	1 cut(s)	565
SfcI	CTRYAG	3 cut(s)	642, 1118, 1151
SfoI	GGCGCC	1 cut(s)	1088
SinI	GGWCC	2 cut(s)	730, 1004
SmlI	CTYRAG	1 cut(s)	737
SmoI	CTYRAG	1 cut(s)	737
Sse9I	AATT	4 cut(s)	342, 557, 840, 1060
SsiI	CCGC	5 cut(s)	267, 270, 309, 327, 991
SspDI	GGCGCC	1 cut(s)	1086
SspI	AATATT	3 cut(s)	470, 750, 912
SspMI	CTAG	1 cut(s)	443
StyD4I	CCNGG	2 cut(s)	997, 1007
StyI	CCWWGG	1 cut(s)	937
TaaI	ACNGT	1 cut(s)	1155
TaiI	ACGT	1 cut(s)	982
TaqI	TCGA	3 cut(s)	276, 508, 770
TaqII	GACCGA	1 cut(s)	962
TasI	AATT	4 cut(s)	342, 557, 840, 1060
TauI	GCSGC	3 cut(s)	270, 311, 994
TfiI	GAWTC	2 cut(s)	662, 830
Tru1I	TTAA	3 cut(s)	246, 738, 746
Tru9I	TTAA	3 cut(s)	246, 738, 746
TscAI	CASTG	3 cut(s)	289, 874, 1160
TseFI	GTSAC	3 cut(s)	10, 314, 869
Tsp45I	GTSAC	3 cut(s)	10, 314, 869
TspDTI	ATGAA	2 cut(s)	480, 559
TspGWI	ACGGA	2 cut(s)	284, 1085
TspRI	CASTG	3 cut(s)	289, 874, 1160
Vha464I	CTTAAG	1 cut(s)	737
VpaK11BI	GGWCC	2 cut(s)	730, 1004
VspI	ATTAAT	1 cut(s)	746
XapI	RAATTY	3 cut(s)	342, 557, 840
XcmI	CCANNNNNNNNNTGG	2 cut(s)	586, 1005
XmnI	GAANNNNTTC	1 cut(s)	829
XspI	CTAG	1 cut(s)	443

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