Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6D

Orthogroup ID

OG0007392

Physical Location & Seq

Genomic Coordinates Reverse (-)

3494909 .. 3501022

Gene Structure 6114 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6DG034600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1506 bp

ATGCAATCCAACATAATGCTGCGGCATAAGGTGGTGAAACTGATGAGAAGGTATCTAGAGGATGTGCATGATTTCGTGGAGGTTGAGACTCCAATACTCTCTAGATCTACACCCGAAGGAGCCCGAGATTATTTAGTACCCTCAAGAGTTCAGGTACTTTACAATTTTTCATCTGGCATTCACTTCATAATTTTGATGTTTTGTCTGCGAACCGCAAAAGTGGACATTCGTACTTTTTTTTTTTACCTTAATAGTTACTTCCATCTTAGTCTGGGGAGCTTATTTTCTCTAATATCTAATTTGAAGCCAGGGACATTTTATGCTTTGCCTCAAAGTCCGCAACTGTTCAAGCAAATGTTGATGGTTTCTGGTTTTGATAAGTATTATCAGATAGCAAGATGTTTTCGAGATGAGGATTTACGAGCTGATAGGCAGCCTGAGTTTACACAGCTTGATATGGAGCTCGCTTTCACTCCTTTAGAGGACATGCTGAGGCTTAATGAAGATTTGATTAGAAAGGTTTTCTTAGAGATCAAAGGTGTACATCTCCCAAACCCTTTTCCTAGGCTTACGTATGCTGAAGCAATGAGTCGATATGGTTCGGACAGGCCAGATATTAGATTTGATCTTGAGCTGAAAGATGTATCTGATATTTTCTCAGATTCCACATTCAGGGTTTTTGCTGATACTTTGACAAGTGGAGGAATTATAAAAGTTTTATGTGTGCCTTCTGGAGCTAAAAGATATTCAAACACAGCTCTAAAGAAGGGAGAAATTTATAATCAAGCAATCAAGTCTGGAGCGAAGGGTTTGCCTTTCCTGAAGGTCTTGGATGATGGTGGAATTGAGGGAATTCCTGCATTAACATCTAGTTTGGATCAAACAAAGATAGAGCAATTTCTGAGTCGTTGCTATGCCAGACCAGGGGAGCTGATCTTGTTTGCAGTGGGTCATCAGGCATCAGTTAATAAAACCCTAGATCGATTACGGGTCTTTGTTGCACATGAGCTTGATTTGATTGATGATTCCAGGCATTCAGTTCTGTGGGTGACTGATTTCCCAATGTTTGAATGGAATGATTTAGAGCAAAGGCTCGAGGCCTTGCACCACCCATTCACTGCCCCAAACCCTGAAGACATAAATAATCTTTCTACAGCTCGTGCTTTAGCGTATGACATGGTTTACAATGGAGTTGAGATTGGTGGCGGAAGTCTGAGAATTTATAAACGTGAGGTGCAGCAAAAGGTTTTGGAAATTGTTGGCATCTCCCCTGAAGAGGCTGAAGCGAAGTTTGGCTATCTTCTTGAGGCATTAGACATGGGTGCCCCTCCACATGGAGGAATCGCCTATGGCTTGGATAGATTGGTCATGTTGTTGGCCGGTGCTAGTTCCATTAGGGATGTCATAGCTTTCCCGAAAACTACAACTGCACAATGTGCCCTTACCAGATCACCGTCTGAGGTGGATCCCCAGCAGCTAAAGGATTTGTCATTTCAGACTCGTTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

ko00970 map00970

Pfam Domains

Protein Families

GAD tRNA-synt_2 tRNA_anti-codon

Protein Analysis

501

Amino Acids

56.77

Weight (kDa)

5.94

Isoelectric Point (pI)

41.98

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
tRNA-synt_2	PF00152	1 - 54	1.1e-13	tRNA synthetases class II (D, K and N)
tRNA-synt_2	PF00152	94 - 474	4e-96	tRNA synthetases class II (D, K and N)
GAD	PF02938	227 - 326	4e-17	GAD domain

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: OG0007392)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G33760 AT4G33760
fragaria_vesca	FvH4_2g03040 FvH4_2g03040 FvH4_2g03040 FvH4_2g03040 FvH4_2g03040 FvH4_2g03040 FvH4_2g03040 FvH4_2g03040
malus_domestica	MD10G1112200.v1.1
prunus_persica	Prupe.8G151800_v2.0.a1
pyrus_communis	pycom10g09720
rosa_chinensis	RchiOBHm_Chr6g0247831
rosa_laevigata	RLG00000015175
rosa_multiflora	Rmu_sc0001048.1_g000005 Rmu_sc0035971.1_g000001
rosa_roxburghii	Rroxscaffold_180G00433200 Rroxscaffold_7G00213610
rosa_rugosa	Rorug05G0529400
rosa_samantha	Rh6AG044100 Rh6BG038800 Rh6CG037600 Rh6DG034600
rosa_wichuraiana	Rw6G003820

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	3 cut(s)	710, 780, 1224
AccB1I	GGYRCC	1 cut(s)	1322
AciI	CCGC	4 cut(s)	22, 213, 338, 1206
AclWI	GGATC	3 cut(s)	885, 1460, 1473
AcoI	YGGCCR	1 cut(s)	1377
AcsI	RAATTY	3 cut(s)	774, 852, 1218
AcuI	CTGAAG	5 cut(s)	600, 842, 1152, 1293, 1302
AdeI	CACNNNGTG	1 cut(s)	1436
AfaI	GTAC	4 cut(s)	138, 156, 232, 543
AfiI	CCNNNNNNNGG	5 cut(s)	672, 924, 1276, 1334, 1337
AgsI	TTSAA	4 cut(s)	304, 349, 750, 1070
AjnI	CCWGG	3 cut(s)	307, 922, 1028
AjuI	GAANNNNNNNTTGG	2 cut(s)	1275, 1307
Alw21I	GWGCWC	1 cut(s)	465
Alw26I	GTCTC	1 cut(s)	80
AlwI	GGATC	3 cut(s)	885, 1460, 1473
Ama87I	CYCGRG	2 cut(s)	123, 1094
AoxI	GGCC	3 cut(s)	608, 1098, 1377
ApeKI	GCWGC	4 cut(s)	19, 433, 1237, 1474
ApoI	RAATTY	3 cut(s)	774, 852, 1218
AspA2I	CCTAGG	1 cut(s)	563
AsuHPI	GGTGA	3 cut(s)	46, 1060, 1443
AvaI	CYCGRG	2 cut(s)	123, 1094
AvrII	CCTAGG	1 cut(s)	563
BaeGI	GKGCMC	2 cut(s)	1327, 1441
BamHI	GGATCC	1 cut(s)	1465
BanI	GGYRCC	1 cut(s)	1322
BanII	GRGCYC	2 cut(s)	124, 465
BauI	CACGAG	1 cut(s)	1158
BbsI	GAAGAC	1 cut(s)	1140
Bbv12I	GWGCWC	1 cut(s)	465
BbvCI	CCTCAGC	1 cut(s)	491
BbvI	GCAGC	4 cut(s)	6, 445, 1249, 1486
BccI	CCATC	3 cut(s)	270, 355, 830
BcgI	CGANNNNNNTGC	2 cut(s)	793, 827
BciT130I	CCWGG	3 cut(s)	309, 924, 1030
BcoDI	GTCTC	1 cut(s)	80
BfaI	CTAG	6 cut(s)	56, 102, 564, 870, 977, 1386
BfmI	CTRYAG	1 cut(s)	1152
BglII	AGATCT	1 cut(s)	104
BisI	GCNGC	5 cut(s)	20, 23, 434, 1238, 1475
BlnI	CCTAGG	1 cut(s)	563
BlsI	GCNGC	5 cut(s)	21, 24, 435, 1239, 1476
Bme1390I	CCNGG	3 cut(s)	309, 924, 1030
BmeT110I	CYCGRG	2 cut(s)	123, 1094
BmiI	GGNNCC	3 cut(s)	121, 1324, 1467
BmrFI	CCNGG	3 cut(s)	309, 924, 1030
BmsI	GCATC	2 cut(s)	968, 1272
BpiI	GAAGAC	1 cut(s)	1140
BpmI	CTGGAG	2 cut(s)	753, 819
Bpu10I	CCTNAGC	1 cut(s)	491
BpuEI	CTTGAG	3 cut(s)	127, 650, 1325
Bsa29I	ATCGAT	1 cut(s)	982
BsaAI	YACGTR	1 cut(s)	573
BsaJI	CCNNGG	3 cut(s)	308, 563, 923
Bsc4I	CCNNNNNNNGG	5 cut(s)	672, 924, 1276, 1334, 1337
Bse118I	RCCGGY	1 cut(s)	1379
Bse3DI	GCAATG	1 cut(s)	591
BseBI	CCWGG	3 cut(s)	309, 924, 1030
BseCI	ATCGAT	1 cut(s)	982
BseDI	CCNNGG	3 cut(s)	308, 563, 923
BseGI	GGATG	3 cut(s)	67, 838, 1405
BseLI	CCNNNNNNNGG	5 cut(s)	672, 924, 1276, 1334, 1337
BseMI	GCAATG	1 cut(s)	591
BseMII	CTCAG	6 cut(s)	429, 482, 672, 893, 1205, 1449
BseSI	GKGCMC	2 cut(s)	1327, 1441
BseXI	GCAGC	4 cut(s)	6, 445, 1249, 1486
BseYI	CCCAGC	1 cut(s)	1470
BsgI	GTGCAG	2 cut(s)	1256, 1413
BshFI	GGCC	3 cut(s)	610, 1100, 1379
BshNI	GGYRCC	1 cut(s)	1322
BshVI	ATCGAT	1 cut(s)	982
BsiHKAI	GWGCWC	1 cut(s)	465
BsiHKCI	CYCGRG	2 cut(s)	123, 1094
BsiSI	CCGG	1 cut(s)	1380
BslFI	GGGAC	1 cut(s)	325
BslI	CCNNNNNNNGG	5 cut(s)	672, 924, 1276, 1334, 1337
BsmAI	GTCTC	1 cut(s)	80
BsmFI	GGGAC	1 cut(s)	325
BsmI	GAATGC	2 cut(s)	177, 1033
BsnI	GGCC	3 cut(s)	610, 1100, 1379
BsoBI	CYCGRG	2 cut(s)	123, 1094
Bsp1286I	GDGCHC	4 cut(s)	124, 465, 1327, 1441
Bsp1407I	TGTACA	1 cut(s)	541
Bsp143I	GATC	8 cut(s)	104, 531, 625, 877, 933, 979, 1448, 1465
BspACI	CCGC	4 cut(s)	22, 213, 338, 1206
BspANI	GGCC	3 cut(s)	610, 1100, 1379
BspCNI	CTCAG	6 cut(s)	430, 483, 671, 894, 1206, 1450
BspDI	ATCGAT	1 cut(s)	982
BspLI	GGNNCC	3 cut(s)	121, 1324, 1467
BspPI	GGATC	3 cut(s)	885, 1460, 1473
BspT107I	GGYRCC	1 cut(s)	1322
BsrDI	GCAATG	1 cut(s)	591
BsrFI	RCCGGY	1 cut(s)	1379
BsrGI	TGTACA	1 cut(s)	541
BssAI	RCCGGY	1 cut(s)	1379
BssECI	CCNNGG	3 cut(s)	308, 563, 923
BssMI	GATC	8 cut(s)	104, 531, 625, 877, 933, 979, 1448, 1465
BssSI	CACGAG	1 cut(s)	1158
BssT1I	CCWWGG	1 cut(s)	563
Bst2BI	CACGAG	1 cut(s)	1158
Bst2UI	CCWGG	3 cut(s)	309, 924, 1030
Bst4CI	ACNGT	2 cut(s)	345, 1455
Bst6I	CTCTTC	1 cut(s)	1269
BstAPI	GCANNNNNTGC	1 cut(s)	1436
BstAUI	TGTACA	1 cut(s)	541
BstBAI	YACGTR	1 cut(s)	573
BstC8I	GCNNGC	1 cut(s)	465
BstDEI	CTNAG	8 cut(s)	266, 438, 491, 526, 658, 902, 1214, 1458
BstF5I	GGATG	3 cut(s)	67, 838, 1405
BstKTI	GATC	8 cut(s)	107, 534, 628, 880, 936, 982, 1451, 1468
BstMAI	GTCTC	1 cut(s)	80
BstMBI	GATC	8 cut(s)	104, 531, 625, 877, 933, 979, 1448, 1465
BstMWI	GCNNNNNNNGC	1 cut(s)	1436
BstNI	CCWGG	3 cut(s)	309, 924, 1030
BstNSI	RCATGY	1 cut(s)	490
BstSCI	CCNGG	3 cut(s)	307, 922, 1028
BstSFI	CTRYAG	1 cut(s)	1152
BstSLI	GKGCMC	2 cut(s)	1327, 1441
BstSNI	TACGTA	1 cut(s)	573
BstV1I	GCAGC	4 cut(s)	6, 445, 1249, 1486
BstV2I	GAAGAC	1 cut(s)	1140
BstX2I	RGATCY	2 cut(s)	104, 1465
BstYI	RGATCY	2 cut(s)	104, 1465
Bsu15I	ATCGAT	1 cut(s)	982
BsuRI	GGCC	3 cut(s)	610, 1100, 1379
BsuTUI	ATCGAT	1 cut(s)	982
BtsCI	GGATG	3 cut(s)	67, 838, 1405
BtsI	GCAGTG	2 cut(s)	951, 1116
BtsIMutI	CAGTG	2 cut(s)	951, 1116
Cac8I	GCNNGC	1 cut(s)	465
Cfr10I	RCCGGY	1 cut(s)	1379
ClaI	ATCGAT	1 cut(s)	982
Csp6I	GTAC	4 cut(s)	137, 155, 231, 542
CviAII	CATG	7 cut(s)	68, 487, 1004, 1177, 1318, 1334, 1369
CviQI	GTAC	4 cut(s)	137, 155, 231, 542
DdeI	CTNAG	8 cut(s)	266, 438, 491, 526, 658, 902, 1214, 1458
DpnI	GATC	8 cut(s)	106, 533, 627, 879, 935, 981, 1450, 1467
DpnII	GATC	8 cut(s)	104, 531, 625, 877, 933, 979, 1448, 1465
DraIII	CACNNNGTG	1 cut(s)	1436
EaeI	YGGCCR	1 cut(s)	1377
Eam1104I	CTCTTC	1 cut(s)	1269
EarI	CTCTTC	1 cut(s)	1269
EciI	GGCGGA	1 cut(s)	1221
Ecl136II	GAGCTC	1 cut(s)	463
Eco105I	TACGTA	1 cut(s)	573
Eco130I	CCWWGG	1 cut(s)	563
Eco147I	AGGCCT	1 cut(s)	1100
Eco24I	GRGCYC	2 cut(s)	124, 465
Eco53kI	GAGCTC	1 cut(s)	463
Eco57I	CTGAAG	5 cut(s)	600, 842, 1152, 1293, 1302
Eco88I	CYCGRG	2 cut(s)	123, 1094
EcoICRI	GAGCTC	1 cut(s)	463
EcoRI	GAATTC	1 cut(s)	852
EcoRII	CCWGG	3 cut(s)	307, 922, 1028
EcoT14I	CCWWGG	1 cut(s)	563
EcoT38I	GRGCYC	2 cut(s)	124, 465
ErhI	CCWWGG	1 cut(s)	563
FaeI	CATG	7 cut(s)	71, 490, 1007, 1180, 1321, 1337, 1372
FalI	AAGNNNNNCTT	2 cut(s)	509, 541
FaqI	GGGAC	1 cut(s)	325
FatI	CATG	7 cut(s)	67, 486, 1003, 1176, 1317, 1333, 1368
Fnu4HI	GCNGC	5 cut(s)	20, 23, 434, 1238, 1475
FokI	GGATG	3 cut(s)	74, 845, 1412
FriOI	GRGCYC	2 cut(s)	124, 465
Fsp4HI	GCNGC	5 cut(s)	20, 23, 434, 1238, 1475
FspBI	CTAG	6 cut(s)	56, 102, 564, 870, 977, 1386
GluI	GCNGC	5 cut(s)	20, 23, 434, 1238, 1475
GsaI	CCCAGC	1 cut(s)	1474
GsuI	CTGGAG	2 cut(s)	753, 819
HaeIII	GGCC	3 cut(s)	610, 1100, 1379
HapII	CCGG	1 cut(s)	1380
Hin1II	CATG	7 cut(s)	71, 490, 1007, 1180, 1321, 1337, 1372
HinfI	GANTC	7 cut(s)	88, 589, 662, 904, 1025, 1341, 1498
HpaII	CCGG	1 cut(s)	1380
HphI	GGTGA	3 cut(s)	46, 1060, 1443
Hpy166II	GTNNAC	4 cut(s)	223, 444, 542, 1183
Hpy188I	TCNGA	8 cut(s)	390, 604, 649, 661, 903, 1215, 1459, 1497
Hpy8I	GTNNAC	4 cut(s)	223, 444, 542, 1183
HpyAV	CCTTC	6 cut(s)	42, 110, 738, 760, 799, 817
HpyCH4III	ACNGT	2 cut(s)	345, 1455
HpyCH4IV	ACGT	2 cut(s)	572, 1228
HpyCH4V	TGCA	8 cut(s)	4, 67, 860, 944, 1001, 1105, 1237, 1430
HpyF10VI	GCNNNNNNNGC	1 cut(s)	1436
HpyF3I	CTNAG	8 cut(s)	266, 438, 491, 526, 658, 902, 1214, 1458
HpySE526I	ACGT	2 cut(s)	572, 1228
Hsp92II	CATG	7 cut(s)	71, 490, 1007, 1180, 1321, 1337, 1372
Kzo9I	GATC	8 cut(s)	104, 531, 625, 877, 933, 979, 1448, 1465
LmnI	GCTCC	6 cut(s)	119, 276, 460, 734, 800, 928
Lsp1109I	GCAGC	4 cut(s)	6, 445, 1249, 1486
LweI	GCATC	2 cut(s)	968, 1272
MaeI	CTAG	6 cut(s)	56, 102, 564, 870, 977, 1386
MaeII	ACGT	2 cut(s)	572, 1228
MaeIII	GTNAC	2 cut(s)	254, 1048
MalI	GATC	8 cut(s)	106, 533, 627, 879, 935, 981, 1450, 1467
MboI	GATC	8 cut(s)	104, 531, 625, 877, 933, 979, 1448, 1465
MboII	GAAGA	4 cut(s)	515, 1145, 1286, 1292
MflI	RGATCY	2 cut(s)	104, 1465
MhlI	GDGCHC	4 cut(s)	124, 465, 1327, 1441
MlyI	GAGTC	4 cut(s)	82, 598, 913, 1492
MmeI	TCCRAC	1 cut(s)	33
MseI	TTAA	4 cut(s)	249, 498, 863, 966
MspI	CCGG	1 cut(s)	1380
MspR9I	CCNGG	3 cut(s)	309, 924, 1030
Mva1269I	GAATGC	2 cut(s)	177, 1033
MvaI	CCWGG	3 cut(s)	309, 924, 1030
MwoI	GCNNNNNNNGC	1 cut(s)	1436
NdeII	GATC	8 cut(s)	104, 531, 625, 877, 933, 979, 1448, 1465
NlaIII	CATG	7 cut(s)	71, 490, 1007, 1180, 1321, 1337, 1372
NlaIV	GGNNCC	3 cut(s)	121, 1324, 1467
NmuCI	GTSAC	1 cut(s)	1048
NspI	RCATGY	1 cut(s)	490
PaeR7I	CTCGAG	1 cut(s)	1094
PceI	AGGCCT	1 cut(s)	1100
PctI	GAATGC	2 cut(s)	177, 1033
PfeI	GAWTC	3 cut(s)	662, 1025, 1341
PkrI	GCNGC	5 cut(s)	21, 24, 435, 1239, 1476
PleI	GAGTC	4 cut(s)	82, 597, 912, 1492
PpsI	GAGTC	4 cut(s)	82, 597, 912, 1492
Ppu21I	YACGTR	1 cut(s)	573
PsiI	TTATAA	3 cut(s)	710, 780, 1224
Psp124BI	GAGCTC	1 cut(s)	465
Psp6I	CCWGG	3 cut(s)	307, 922, 1028
PspFI	CCCAGC	1 cut(s)	1470
PspGI	CCWGG	3 cut(s)	307, 922, 1028
PspN4I	GGNNCC	3 cut(s)	121, 1324, 1467
PspXI	VCTCGAGB	1 cut(s)	1094
PsuI	RGATCY	2 cut(s)	104, 1465
RsaI	GTAC	4 cut(s)	138, 156, 232, 543
RsaNI	GTAC	4 cut(s)	137, 155, 231, 542
SacI	GAGCTC	1 cut(s)	465
SaqAI	TTAA	4 cut(s)	249, 498, 863, 966
SatI	GCNGC	5 cut(s)	20, 23, 434, 1238, 1475
Sau3AI	GATC	8 cut(s)	104, 531, 625, 877, 933, 979, 1448, 1465
SchI	GAGTC	4 cut(s)	82, 598, 913, 1492
ScrFI	CCNGG	3 cut(s)	309, 924, 1030
SduI	GDGCHC	4 cut(s)	124, 465, 1327, 1441
SfaNI	GCATC	2 cut(s)	968, 1272
SfcI	CTRYAG	1 cut(s)	1152
Sfr274I	CTCGAG	1 cut(s)	1094
SlaI	CTCGAG	1 cut(s)	1094
SmlI	CTYRAG	4 cut(s)	142, 629, 1094, 1304
SmoI	CTYRAG	4 cut(s)	142, 629, 1094, 1304
SnaBI	TACGTA	1 cut(s)	573
SseBI	AGGCCT	1 cut(s)	1100
SsiI	CCGC	4 cut(s)	22, 213, 338, 1206
SspMI	CTAG	6 cut(s)	56, 102, 564, 870, 977, 1386
SstI	GAGCTC	1 cut(s)	465
StuI	AGGCCT	1 cut(s)	1100
StyD4I	CCNGG	3 cut(s)	307, 922, 1028
StyI	CCWWGG	1 cut(s)	563
TaaI	ACNGT	2 cut(s)	345, 1455
TaiI	ACGT	2 cut(s)	575, 1231
TaqI	TCGA	4 cut(s)	406, 592, 982, 1095
TatI	WGTACW	1 cut(s)	541
TauI	GCSGC	1 cut(s)	25
TfiI	GAWTC	3 cut(s)	662, 1025, 1341
Tru1I	TTAA	4 cut(s)	249, 498, 863, 966
Tru9I	TTAA	4 cut(s)	249, 498, 863, 966
TscAI	CASTG	2 cut(s)	951, 1123
TseFI	GTSAC	1 cut(s)	1048
TseI	GCWGC	4 cut(s)	19, 433, 1237, 1474
Tsp45I	GTSAC	1 cut(s)	1048
TspDTI	ATGAA	3 cut(s)	159, 175, 516
TspRI	CASTG	2 cut(s)	951, 1123
XapI	RAATTY	3 cut(s)	774, 852, 1218
XbaI	TCTAGA	2 cut(s)	55, 101
XceI	RCATGY	1 cut(s)	490
XcmI	CCANNNNNNNNNTGG	1 cut(s)	1068
XhoI	CTCGAG	1 cut(s)	1094
XmaJI	CCTAGG	1 cut(s)	563
XspI	CTAG	6 cut(s)	56, 102, 564, 870, 977, 1386

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