Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1D

Orthogroup ID

OG0009723

Physical Location & Seq

Genomic Coordinates Reverse (-)

63305511 .. 63348826

Gene Structure 43316 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1DG418000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1503 bp

ATGAAATTCCCAGCAATTTGTCCTTTCAAAACCCTCCATGTTCCCGCCAATTTTACAGCAAAGCCAAAGCTTCACGTCCAAAAACTTCTCGGAAAGATCTCCGGCCACTCCAAACCCAACCACATTGGAAATTCCGTTCAAGTCTTGACGAAAAATAGTAGTAGCTTCTCAATCTCGACGACGTTCAAGGACGAGATAGAGCAAGACTTGGAGAATTCGAGCAGCGATAAGAGTTGGATTCACTTAGTGGGAATTGGAGGCTGTGGATTGTCTGCGCTGGCCATGCTTGCACTCAAACATGGTAATGAGGTTAGTGGCTCGGATATGAGATGGAGTAGCTTCATGGATGCATTGCAGGAAGCCGGGGCACAATGTGGAGATTTTGTATGCAAACTCGGTTGGAGTTCCCGTGGGGTGTTTAGTTTATTGGCCGAGCAGTTGAAGCTGACACAGGGCTACAATCTTATTGCTGTAAGCAGTAGCCATGGAAAGAGTACAACTGCAAGTATGCTTGCTTATGTTCTAGACGCCATGGGTGATAGTCTTACAGCAGTAGTTGGAGCTCACATGCCACAGTTCTCGGGTGGAAACATTATCTTGGGAGATGGTCAAAATTTTGTGCTAGAGGCTGATGAATATGATGGTTGCTTCCTGGGACTATCACCTTATATAGCTGTTGTAACAAATCTGGATTGGGAGCATGTTGATATTTTCCAAAACGAGGAAGCAGTTAAAGCTACTTTCCATAAATTCCTGAATCTAATCAGGGTGGGTGGACATCTCATTTTATGTGGGGATAGTCAGGGTGCCTATTCCTTGCTGACTGATGTAAAGCAAGCAATTGGATCAGATACTTTGAGCGGTCTAATGCATTCTCCGCTACAAAAATGTTGCATTGGCTACATCATAACAACTTATGGAACTACAAGTTCTAATGAATGGAGTGCATCCTCAATTAGGCCAAATTTAAAGGGTGGTAGTGATTATACACTGTGTCATTGGGGGCGCTCAGTGGCAGACATCAGTCTACAGGTTCCAGGAGTTCATAATGTCCTAAATTCACTAGCAGTTATTGCCACTGTGATAGCATTATACAATAACCAACGTGAAATTACCAATACAATAAATGGTTTGAGGTTGCATTTAAACAATTTTATAGGCGTTTCAAGACGTTTTGAAATGATTGGCACAATATGTGGATGCGATATATATGATGATTATGCCCATCATCCAATGGAAGTTCAAGCAGTTATTCAAGCTGCCCGCCAGAAGTTCCCTATCAAGTCTCTTTTAGTGGTATTTCAGCCTCATACTTACAGTCGTTTAGCAGCACTGAAGGATGATTTTGCCAGTGCCCTCTGTGGTGCAGATCAAGTTGTAGTTAGAGAGGTTTATGCTGCTAGAGAAATAGATGTTGGGAGCGTTGGTGGAAGGGAGTTAGCTGCTTCTGTAATCGGCCCGCCATGTGAATACATCCCTTCTCTGGTAATACTAAAGTTTTAG

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

Mur_ligase Mur_ligase_C Mur_ligase_M

Protein Analysis

500

Amino Acids

54.02

Weight (kDa)

6.21

Isoelectric Point (pI)

30.63

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Mur_ligase	PF01225	80 - 124	1.3e-07	Mur ligase family, catalytic domain
Mur_ligase_M	PF08245	161 - 269	1e-09	Mur ligase middle domain
Mur_ligase_C	PF02875	390 - 463	1.8e-12	Mur ligase, glutamate ligase 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

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0009723)

Species	Orthologous Gene IDs
malus_domestica	MD01G1208200.v1.1 MD07G1278800.v1.1
prunus_persica	Prupe.2G300700_v2.0.a1
pyrus_communis	pycom01g21880
rosa_chinensis	RchiOBHm_Chr1g0378261
rosa_laevigata	RLG00000026454 RLG00000026455
rosa_multiflora	Rmu_sc0006315.1_g000004 Rmu_sc0006315.1_g000010 Rmu_sc0013545.1_g000004
rosa_roxburghii	Rroxscaffold_4G00280540 Rroxscaffold_4G00280550 Rroxscaffold_4G00280600
rosa_rugosa	Rorug01G0407600 Rorug01G0407800
rosa_samantha	Rh1AG421700 Rh1AG422200 Rh1BG386900 Rh1CG400400 Rh1DG418000
rosa_wichuraiana	Rw0G013300 Rw1G037520

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	806
AccBSI	CCGCTC	1 cut(s)	861
AccI	GTMKAC	1 cut(s)	1027
AciI	CCGC	5 cut(s)	45, 861, 878, 1264, 1460
AclWI	GGATC	1 cut(s)	853
AcoI	YGGCCR	3 cut(s)	103, 279, 429
AcsI	RAATTY	7 cut(s)	5, 130, 214, 613, 749, 964, 1057
AcuI	CTGAAG	1 cut(s)	1355
AcyI	GRCGYC	1 cut(s)	528
AdeI	CACNNNGTG	2 cut(s)	247, 374
AfaI	GTAC	1 cut(s)	496
AfiI	CCNNNNNNNGG	3 cut(s)	721, 957, 1483
AgsI	TTSAA	8 cut(s)	28, 140, 187, 442, 1167, 1178, 1244, 1256
AjiI	CACGTC	1 cut(s)	76
AjnI	CCWGG	2 cut(s)	651, 1036
AjuI	GAANNNNNNNTTGG	2 cut(s)	1398, 1430
AloI	GAACNNNNNNTCC	2 cut(s)	120, 152
AluBI	AGCT	9 cut(s)	70, 165, 339, 445, 563, 674, 737, 1259, 1442
AluI	AGCT	9 cut(s)	70, 165, 339, 445, 563, 674, 737, 1259, 1442
Alw21I	GWGCWC	1 cut(s)	565
Alw26I	GTCTC	1 cut(s)	1290
AlwI	GGATC	1 cut(s)	853
Ama87I	CYCGRG	1 cut(s)	580
AoxI	GGCC	5 cut(s)	103, 279, 429, 959, 1456
ApeKI	GCWGC	5 cut(s)	222, 1259, 1328, 1397, 1442
ApoI	RAATTY	7 cut(s)	5, 130, 214, 613, 749, 964, 1057
AspLEI	GCGC	2 cut(s)	277, 1008
AspS9I	GGNCC	1 cut(s)	1457
AsuC2I	CCSGG	1 cut(s)	364
AsuHPI	GGTGA	2 cut(s)	548, 654
AvaI	CYCGRG	1 cut(s)	580
BaeGI	GKGCMC	2 cut(s)	370, 1357
BalI	TGGCCA	1 cut(s)	281
BanI	GGYRCC	1 cut(s)	806
BanII	GRGCYC	1 cut(s)	565
Bbv12I	GWGCWC	1 cut(s)	565
BbvI	GCAGC	5 cut(s)	234, 1246, 1340, 1384, 1429
BccI	CCATC	4 cut(s)	324, 599, 635, 1233
BciT130I	CCWGG	2 cut(s)	653, 1038
BcnI	CCSGG	1 cut(s)	364
BcoDI	GTCTC	1 cut(s)	1290
BfaI	CTAG	4 cut(s)	524, 623, 1064, 1401
BfmI	CTRYAG	1 cut(s)	1028
BfoI	RGCGCY	1 cut(s)	1009
BglII	AGATCT	1 cut(s)	96
BisI	GCNGC	5 cut(s)	223, 1260, 1329, 1398, 1443
BlsI	GCNGC	5 cut(s)	224, 1261, 1330, 1399, 1444
Bme1390I	CCNGG	3 cut(s)	364, 653, 1038
BmeT110I	CYCGRG	1 cut(s)	580
BmgBI	CACGTC	1 cut(s)	76
BmgT120I	GGNCC	1 cut(s)	1457
BmiI	GGNNCC	2 cut(s)	808, 1035
BmrFI	CCNGG	3 cut(s)	364, 653, 1038
BmsI	GCATC	3 cut(s)	337, 956, 1190
BoxI	GACNNNNGTC	1 cut(s)	1023
BpuMI	CCSGG	1 cut(s)	364
BsaHI	GRCGYC	1 cut(s)	528
BsaJI	CCNNGG	5 cut(s)	363, 409, 484, 531, 652
BsaXI	ACNNNNNCTCC	6 cut(s)	369, 394, 399, 424, 1411, 1441
Bsc4I	CCNNNNNNNGG	3 cut(s)	721, 957, 1483
Bse1I	ACTGG	1 cut(s)	1350
Bse3DI	GCAATG	1 cut(s)	350
BseBI	CCWGG	2 cut(s)	653, 1038
BseDI	CCNNGG	5 cut(s)	363, 409, 484, 531, 652
BseGI	GGATG	6 cut(s)	352, 947, 1205, 1228, 1345, 1473
BseLI	CCNNNNNNNGG	3 cut(s)	721, 957, 1483
BseMI	GCAATG	1 cut(s)	350
BseMII	CTCAG	1 cut(s)	1023
BseNI	ACTGG	1 cut(s)	1350
BseSI	GKGCMC	2 cut(s)	370, 1357
BseXI	GCAGC	5 cut(s)	234, 1246, 1340, 1384, 1429
BseYI	CCCAGC	1 cut(s)	10
BsgI	GTGCAG	1 cut(s)	1386
BshFI	GGCC	5 cut(s)	105, 281, 431, 961, 1458
BshNI	GGYRCC	1 cut(s)	806
BsiHKAI	GWGCWC	1 cut(s)	565
BsiHKCI	CYCGRG	1 cut(s)	580
BsiSI	CCGG	2 cut(s)	102, 363
BslFI	GGGAC	1 cut(s)	669
BslI	CCNNNNNNNGG	3 cut(s)	721, 957, 1483
BsmAI	GTCTC	1 cut(s)	1290
BsmFI	GGGAC	1 cut(s)	669
BsmI	GAATGC	1 cut(s)	871
BsnI	GGCC	5 cut(s)	105, 281, 431, 961, 1458
BsoBI	CYCGRG	1 cut(s)	580
Bsp1286I	GDGCHC	3 cut(s)	370, 565, 1357
Bsp143I	GATC	3 cut(s)	96, 845, 1369
Bsp19I	CCATGG	2 cut(s)	484, 531
BspACI	CCGC	5 cut(s)	45, 861, 878, 1264, 1460
BspANI	GGCC	5 cut(s)	105, 281, 431, 961, 1458
BspCNI	CTCAG	1 cut(s)	1022
BspLI	GGNNCC	2 cut(s)	808, 1035
BspPI	GGATC	1 cut(s)	853
BspT107I	GGYRCC	1 cut(s)	806
BsrBI	CCGCTC	1 cut(s)	861
BsrDI	GCAATG	1 cut(s)	350
BsrI	ACTGG	1 cut(s)	1350
BssECI	CCNNGG	5 cut(s)	363, 409, 484, 531, 652
BssMI	GATC	3 cut(s)	96, 845, 1369
BssNI	GRCGYC	1 cut(s)	528
BssT1I	CCWWGG	2 cut(s)	484, 531
Bst2UI	CCWGG	2 cut(s)	653, 1038
Bst4CI	ACNGT	4 cut(s)	576, 993, 1081, 1319
BstACI	GRCGYC	1 cut(s)	528
BstAPI	GCANNNNNTGC	1 cut(s)	1073
BstC8I	GCNNGC	6 cut(s)	279, 288, 513, 837, 1264, 1460
BstDEI	CTNAG	2 cut(s)	244, 1009
BstDSI	CCRYGG	3 cut(s)	409, 484, 531
BstENI	CCTNNNNNAGG	1 cut(s)	955
BstF5I	GGATG	6 cut(s)	352, 947, 1205, 1228, 1345, 1473
BstH2I	RGCGCY	1 cut(s)	1009
BstHHI	GCGC	2 cut(s)	277, 1008
BstKTI	GATC	3 cut(s)	99, 848, 1372
BstMAI	GTCTC	1 cut(s)	1290
BstMBI	GATC	3 cut(s)	96, 845, 1369
BstMWI	GCNNNNNNNGC	6 cut(s)	283, 287, 442, 734, 877, 1073
BstNI	CCWGG	2 cut(s)	653, 1038
BstNSI	RCATGY	2 cut(s)	571, 704
BstPAI	GACNNNNGTC	1 cut(s)	1023
BstSCI	CCNGG	3 cut(s)	362, 651, 1036
BstSFI	CTRYAG	1 cut(s)	1028
BstSLI	GKGCMC	2 cut(s)	370, 1357
BstV1I	GCAGC	5 cut(s)	234, 1246, 1340, 1384, 1429
BstX2I	RGATCY	1 cut(s)	96
BstYI	RGATCY	1 cut(s)	96
BsuRI	GGCC	5 cut(s)	105, 281, 431, 961, 1458
BtgI	CCRYGG	3 cut(s)	409, 484, 531
BtrI	CACGTC	1 cut(s)	76
BtsCI	GGATG	6 cut(s)	352, 947, 1205, 1228, 1345, 1473
BtsIMutI	CAGTG	5 cut(s)	989, 1017, 1077, 1331, 1357
Cac8I	GCNNGC	6 cut(s)	279, 288, 513, 837, 1264, 1460
CfoI	GCGC	2 cut(s)	277, 1008
Cfr13I	GGNCC	1 cut(s)	1457
CseI	GACGC	1 cut(s)	536
Csp6I	GTAC	1 cut(s)	495
CviAII	CATG	9 cut(s)	38, 283, 299, 343, 485, 532, 568, 701, 1464
CviQI	GTAC	1 cut(s)	495
DdeI	CTNAG	2 cut(s)	244, 1009
DpnI	GATC	3 cut(s)	98, 847, 1371
DpnII	GATC	3 cut(s)	96, 845, 1369
DraI	TTTAAA	2 cut(s)	969, 1146
DraIII	CACNNNGTG	2 cut(s)	247, 374
EaeI	YGGCCR	3 cut(s)	103, 279, 429
Ecl136II	GAGCTC	1 cut(s)	563
Eco130I	CCWWGG	2 cut(s)	484, 531
Eco24I	GRGCYC	1 cut(s)	565
Eco53kI	GAGCTC	1 cut(s)	563
Eco57I	CTGAAG	1 cut(s)	1355
Eco88I	CYCGRG	1 cut(s)	580
EcoICRI	GAGCTC	1 cut(s)	563
EcoNI	CCTNNNNNAGG	1 cut(s)	955
EcoRI	GAATTC	1 cut(s)	214
EcoRII	CCWGG	2 cut(s)	651, 1036
EcoT14I	CCWWGG	2 cut(s)	484, 531
EcoT22I	ATGCAT	2 cut(s)	352, 873
EcoT38I	GRGCYC	1 cut(s)	565
ErhI	CCWWGG	2 cut(s)	484, 531
FaeI	CATG	9 cut(s)	41, 286, 302, 346, 488, 535, 571, 704, 1467
FaqI	GGGAC	1 cut(s)	669
FatI	CATG	9 cut(s)	37, 282, 298, 342, 484, 531, 567, 700, 1463
FauI	CCCGC	3 cut(s)	52, 1271, 1467
FblI	GTMKAC	1 cut(s)	1027
Fnu4HI	GCNGC	5 cut(s)	223, 1260, 1329, 1398, 1443
FokI	GGATG	6 cut(s)	359, 934, 1212, 1215, 1352, 1460
FriOI	GRGCYC	1 cut(s)	565
Fsp4HI	GCNGC	5 cut(s)	223, 1260, 1329, 1398, 1443
FspBI	CTAG	4 cut(s)	524, 623, 1064, 1401
GlaI	GCGC	2 cut(s)	276, 1007
GluI	GCNGC	5 cut(s)	223, 1260, 1329, 1398, 1443
GsaI	CCCAGC	1 cut(s)	14
HaeII	RGCGCY	1 cut(s)	1009
HaeIII	GGCC	5 cut(s)	105, 281, 431, 961, 1458
HapII	CCGG	2 cut(s)	102, 363
HgaI	GACGC	1 cut(s)	536
HhaI	GCGC	2 cut(s)	277, 1008
Hin1I	GRCGYC	1 cut(s)	528
Hin1II	CATG	9 cut(s)	41, 286, 302, 346, 488, 535, 571, 704, 1467
Hin6I	GCGC	2 cut(s)	275, 1006
HinP1I	GCGC	2 cut(s)	275, 1006
HindIII	AAGCTT	1 cut(s)	68
HinfI	GANTC	2 cut(s)	238, 757
HpaII	CCGG	2 cut(s)	102, 363
HphI	GGTGA	2 cut(s)	548, 654
Hpy166II	GTNNAC	2 cut(s)	776, 1028
Hpy188I	TCNGA	3 cut(s)	92, 322, 850
Hpy188III	TCNNGA	6 cut(s)	145, 175, 524, 689, 754, 1167
Hpy8I	GTNNAC	2 cut(s)	776, 1028
Hpy99I	CGWCG	2 cut(s)	181, 184
HpyAV	CCTTC	3 cut(s)	1330, 1425, 1488
HpyCH4III	ACNGT	4 cut(s)	576, 993, 1081, 1319
HpyCH4IV	ACGT	4 cut(s)	75, 182, 1105, 1171
HpyF10VI	GCNNNNNNNGC	6 cut(s)	283, 287, 442, 734, 877, 1073
HpyF3I	CTNAG	2 cut(s)	244, 1009
HpySE526I	ACGT	4 cut(s)	75, 182, 1105, 1171
Hsp92I	GRCGYC	1 cut(s)	528
Hsp92II	CATG	9 cut(s)	41, 286, 302, 346, 488, 535, 571, 704, 1467
HspAI	GCGC	2 cut(s)	275, 1006
Kzo9I	GATC	3 cut(s)	96, 845, 1369
LmnI	GCTCC	3 cut(s)	560, 697, 1419
Lsp1109I	GCAGC	5 cut(s)	234, 1246, 1340, 1384, 1429
LweI	GCATC	3 cut(s)	337, 956, 1190
MaeI	CTAG	4 cut(s)	524, 623, 1064, 1401
MaeII	ACGT	4 cut(s)	75, 182, 1105, 1171
MaeIII	GTNAC	1 cut(s)	679
MalI	GATC	3 cut(s)	98, 847, 1371
MbiI	CCGCTC	1 cut(s)	861
MboI	GATC	3 cut(s)	96, 845, 1369
MfeI	CAATTG	1 cut(s)	840
MflI	RGATCY	1 cut(s)	96
MhlI	GDGCHC	3 cut(s)	370, 565, 1357
MlsI	TGGCCA	1 cut(s)	281
MluNI	TGGCCA	1 cut(s)	281
MmeI	TCCRAC	3 cut(s)	215, 380, 538
Mox20I	TGGCCA	1 cut(s)	281
Mph1103I	ATGCAT	2 cut(s)	352, 873
MscI	TGGCCA	1 cut(s)	281
MseI	TTAA	3 cut(s)	732, 968, 1145
MslI	CAYNNNNRTG	1 cut(s)	303
Msp20I	TGGCCA	1 cut(s)	281
MspI	CCGG	2 cut(s)	102, 363
MspR9I	CCNGG	3 cut(s)	364, 653, 1038
MunI	CAATTG	1 cut(s)	840
Mva1269I	GAATGC	1 cut(s)	871
MvaI	CCWGG	2 cut(s)	653, 1038
MwoI	GCNNNNNNNGC	6 cut(s)	283, 287, 442, 734, 877, 1073
NciI	CCSGG	1 cut(s)	364
NcoI	CCATGG	2 cut(s)	484, 531
NdeII	GATC	3 cut(s)	96, 845, 1369
NlaIII	CATG	9 cut(s)	41, 286, 302, 346, 488, 535, 571, 704, 1467
NlaIV	GGNNCC	2 cut(s)	808, 1035
NmeAIII	GCCGAG	1 cut(s)	457
NsiI	ATGCAT	2 cut(s)	352, 873
NspI	RCATGY	2 cut(s)	571, 704
PctI	GAATGC	1 cut(s)	871
PfeI	GAWTC	2 cut(s)	238, 757
PfoI	TCCNGGA	1 cut(s)	1036
PkrI	GCNGC	5 cut(s)	224, 1261, 1330, 1399, 1444
PshAI	GACNNNNGTC	1 cut(s)	1023
Psp124BI	GAGCTC	1 cut(s)	565
Psp6I	CCWGG	2 cut(s)	651, 1036
PspFI	CCCAGC	1 cut(s)	10
PspGI	CCWGG	2 cut(s)	651, 1036
PspN4I	GGNNCC	2 cut(s)	808, 1035
PspPI	GGNCC	1 cut(s)	1457
PsuI	RGATCY	1 cut(s)	96
RsaI	GTAC	1 cut(s)	496
RsaNI	GTAC	1 cut(s)	495
RseI	CAYNNNNRTG	1 cut(s)	303
SacI	GAGCTC	1 cut(s)	565
SaqAI	TTAA	3 cut(s)	732, 968, 1145
SatI	GCNGC	5 cut(s)	223, 1260, 1329, 1398, 1443
Sau3AI	GATC	3 cut(s)	96, 845, 1369
Sau96I	GGNCC	1 cut(s)	1457
ScrFI	CCNGG	3 cut(s)	364, 653, 1038
SduI	GDGCHC	3 cut(s)	370, 565, 1357
SfaNI	GCATC	3 cut(s)	337, 956, 1190
SfcI	CTRYAG	1 cut(s)	1028
SmiMI	CAYNNNNRTG	1 cut(s)	303
SsiI	CCGC	5 cut(s)	45, 861, 878, 1264, 1460
SspMI	CTAG	4 cut(s)	524, 623, 1064, 1401
SstI	GAGCTC	1 cut(s)	565
StyD4I	CCNGG	3 cut(s)	362, 651, 1036
StyI	CCWWGG	2 cut(s)	484, 531
TaaI	ACNGT	4 cut(s)	576, 993, 1081, 1319
TaiI	ACGT	4 cut(s)	78, 185, 1108, 1174
TaqI	TCGA	2 cut(s)	176, 218
TatI	WGTACW	1 cut(s)	494
TfiI	GAWTC	2 cut(s)	238, 757
Tru1I	TTAA	3 cut(s)	732, 968, 1145
Tru9I	TTAA	3 cut(s)	732, 968, 1145
TscAI	CASTG	5 cut(s)	996, 1017, 1084, 1338, 1357
TseI	GCWGC	5 cut(s)	222, 1259, 1328, 1397, 1442
TspDTI	ATGAA	5 cut(s)	17, 331, 648, 951, 1034
TspGWI	ACGGA	1 cut(s)	124
TspRI	CASTG	5 cut(s)	996, 1017, 1084, 1338, 1357
XagI	CCTNNNNNAGG	1 cut(s)	955
XapI	RAATTY	7 cut(s)	5, 130, 214, 613, 749, 964, 1057
XbaI	TCTAGA	1 cut(s)	523
XceI	RCATGY	2 cut(s)	571, 704
XmiI	GTMKAC	1 cut(s)	1027
XspI	CTAG	4 cut(s)	524, 623, 1064, 1401
Zsp2I	ATGCAT	2 cut(s)	352, 873

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