Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1B

Orthogroup ID

OG0009723

Physical Location & Seq

Genomic Coordinates Reverse (-)

51399630 .. 51440854

Gene Structure 41225 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1BG386900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1488 bp

ATGAAATTCCCAGCAATTTGTCCTTTCAAAACCCTCCATGTTCCCGCCAATTTTACAGCAAAGCCAAAGCTTCACGTCCAAAAACTTCTCGGAAAGATCTCCGGCCACTCCAAACCCAACCACATTGGAAATTCCGTTCAAGTCTTGACGAAAAATAGTAGTAGCTTCTCAATCTCGACGACGTTCAAGGACGAGATAGAGCAAGACTTGGAGAATTCGAGCAGCGATAAGAGTTGGATTCACTTAGTGGGAATTGGAGGCTGTGGATTGTCTGCGCTGGCCATGCTTGCACTCAAACATGGTAATGAGCTGACACAGGGCTACAATCTTATTGCTGTAAGCAGTAGCCATGGAAAGAGTACAACTGCAAGTATGCTTGCTTATGTTCTAGACGCCATGGGTGATAGTCTTACAGCAGTAGTTGGAGCTCACATGCCACAGTTCTCGGGTGGAAACATTATCTTGGGAGATGGTCAAAATTTTGTGCTAGAGGCTGATGAATATGATGGTTGCTTCCTGGGACTATCACCTTATATAGCTGTTGTAACAAATCTGGATTGGGAGCATGTTGATATTTTCCAAAACGAGGAAGCAGTTAAAGCTACTTTCCATAAATTCCTGAATCTAATCAGGGTGGGTGGACATCTCATTTTATGTGGGGATAGTCAGGGTGCCTATTCCTTGCTGACTGATGTAAAGCAAGCAATTGGATCAGATACTTTGAGCGGTCTAATGCATTCTCCGCTACAAAAATGTTGCATTGGCTACATCATAACAACTTATGGAACTACAAGTTCTAATGAATGGAGTGCATCCTCAATTAGGCCAAATTTAAAGGGTGGTAGTGATTATACACTGTGTCATTGGGGGCGCTCAGTGGCAGACATCAGTCTACAGGTTCCAGGAGTTCATAATGTCCTAAATTCACTAGCAGTTATTGCCACTGTGATAGCATTATACAATAACCAACGTGAAATTACCAATACAATAAATGGTTTGAGGTTGCATTTAAACAATTTTATAGGCGTTTCAAGACGTTTTGAAATGATTGGCACAATATGTGGATGCGATATATATGATGATTATGCCCATCATCCAATGGAAGTTCAAGCAGTTATTCAAGCTGCCCGCCAGAAGTTCCCTATCAAGTCTCTTTTAGTGGTATTTCAGCCTCATACTTACAGTCGTTTAGCAGCACTGAAGGATGATTTTGCCAGTGCCCTCTGTGGTGCAGATCAAGTTGTAGTTAGAGAGGTTTATGCTGCTAGAGAAATAGATGTTGGGAGCGTTGGTGGAAGGGAGTTAGCTGCTTCTGTAATCGGCCCGCCATGTGAATACATCCCTTCTCTGGGTGATGTGGTAGAGAGGTTGGTATATCAAATATGCAAGAACCCTCATCATGATACCATTGTCTTAACACTTGGAGCAGGTGATATAACAACAGTGGGGCCAAAGCTGCTCTATGAATTGCGAAGAAGTTACAAGTAA

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

495

Amino Acids

53.6

Weight (kDa)

6.36

Isoelectric Point (pI)

29.01

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Mur_ligase_M	PF08245	116 - 224	1e-09	Mur ligase middle domain
Mur_ligase_C	PF02875	345 - 477	9.1e-15	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

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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)
AarI	CACCTGC	1 cut(s)	1418
Acc36I	ACCTGC	1 cut(s)	1418
AccB1I	GGYRCC	1 cut(s)	671
AccBSI	CCGCTC	1 cut(s)	726
AccI	GTMKAC	1 cut(s)	892
AciI	CCGC	5 cut(s)	45, 726, 743, 1129, 1325
AclWI	GGATC	1 cut(s)	718
AcoI	YGGCCR	2 cut(s)	103, 279
AcsI	RAATTY	7 cut(s)	5, 130, 214, 478, 614, 829, 922
AcuI	CTGAAG	1 cut(s)	1220
AcyI	GRCGYC	1 cut(s)	393
AdeI	CACNNNGTG	1 cut(s)	247
AfaI	GTAC	1 cut(s)	361
AfiI	CCNNNNNNNGG	4 cut(s)	586, 822, 1348, 1349
AgsI	TTSAA	7 cut(s)	28, 140, 187, 1032, 1043, 1109, 1121
AjiI	CACGTC	1 cut(s)	76
AjnI	CCWGG	2 cut(s)	516, 901
AjuI	GAANNNNNNNTTGG	2 cut(s)	1263, 1295
AloI	GAACNNNNNNTCC	2 cut(s)	120, 152
AluBI	AGCT	9 cut(s)	70, 165, 310, 428, 539, 602, 1124, 1307, 1456
AluI	AGCT	9 cut(s)	70, 165, 310, 428, 539, 602, 1124, 1307, 1456
Alw21I	GWGCWC	1 cut(s)	430
Alw26I	GTCTC	1 cut(s)	1155
AlwI	GGATC	1 cut(s)	718
Ama87I	CYCGRG	1 cut(s)	445
AoxI	GGCC	5 cut(s)	103, 279, 824, 1321, 1448
ApeKI	GCWGC	6 cut(s)	222, 1124, 1193, 1262, 1307, 1456
ApoI	RAATTY	7 cut(s)	5, 130, 214, 478, 614, 829, 922
AspLEI	GCGC	2 cut(s)	277, 873
AspS9I	GGNCC	2 cut(s)	1322, 1448
AsuHPI	GGTGA	4 cut(s)	413, 519, 1364, 1442
AvaI	CYCGRG	1 cut(s)	445
BaeGI	GKGCMC	1 cut(s)	1222
BaeI	ACNNNNGTAYC	2 cut(s)	1395, 1428
BalI	TGGCCA	1 cut(s)	281
BanI	GGYRCC	1 cut(s)	671
BanII	GRGCYC	1 cut(s)	430
Bbv12I	GWGCWC	1 cut(s)	430
BbvI	GCAGC	6 cut(s)	234, 1111, 1205, 1249, 1294, 1443
BccI	CCATC	3 cut(s)	464, 500, 1098
BciT130I	CCWGG	2 cut(s)	518, 903
BcoDI	GTCTC	1 cut(s)	1155
BfaI	CTAG	4 cut(s)	389, 488, 929, 1266
BfmI	CTRYAG	1 cut(s)	893
BfoI	RGCGCY	1 cut(s)	874
BfuAI	ACCTGC	1 cut(s)	1418
BglII	AGATCT	1 cut(s)	96
BisI	GCNGC	6 cut(s)	223, 1125, 1194, 1263, 1308, 1457
BlsI	GCNGC	6 cut(s)	224, 1126, 1195, 1264, 1309, 1458
Bme1390I	CCNGG	2 cut(s)	518, 903
BmeT110I	CYCGRG	1 cut(s)	445
BmgBI	CACGTC	1 cut(s)	76
BmgT120I	GGNCC	2 cut(s)	1322, 1448
BmiI	GGNNCC	3 cut(s)	673, 900, 1449
BmrFI	CCNGG	2 cut(s)	518, 903
BmsI	GCATC	2 cut(s)	821, 1055
BoxI	GACNNNNGTC	1 cut(s)	888
BsaHI	GRCGYC	1 cut(s)	393
BsaJI	CCNNGG	3 cut(s)	349, 396, 517
BsaXI	ACNNNNNCTCC	2 cut(s)	1276, 1306
Bsc4I	CCNNNNNNNGG	4 cut(s)	586, 822, 1348, 1349
Bse1I	ACTGG	1 cut(s)	1215
BseBI	CCWGG	2 cut(s)	518, 903
BseDI	CCNNGG	3 cut(s)	349, 396, 517
BseGI	GGATG	5 cut(s)	812, 1070, 1093, 1210, 1338
BseLI	CCNNNNNNNGG	4 cut(s)	586, 822, 1348, 1349
BseMII	CTCAG	1 cut(s)	888
BseNI	ACTGG	1 cut(s)	1215
BseSI	GKGCMC	1 cut(s)	1222
BseXI	GCAGC	6 cut(s)	234, 1111, 1205, 1249, 1294, 1443
BseYI	CCCAGC	1 cut(s)	10
BsgI	GTGCAG	1 cut(s)	1251
BshFI	GGCC	5 cut(s)	105, 281, 826, 1323, 1450
BshNI	GGYRCC	1 cut(s)	671
BsiHKAI	GWGCWC	1 cut(s)	430
BsiHKCI	CYCGRG	1 cut(s)	445
BsiSI	CCGG	1 cut(s)	102
BslFI	GGGAC	1 cut(s)	534
BslI	CCNNNNNNNGG	4 cut(s)	586, 822, 1348, 1349
BsmAI	GTCTC	1 cut(s)	1155
BsmFI	GGGAC	1 cut(s)	534
BsmI	GAATGC	1 cut(s)	736
BsnI	GGCC	5 cut(s)	105, 281, 826, 1323, 1450
BsoBI	CYCGRG	1 cut(s)	445
Bsp1286I	GDGCHC	2 cut(s)	430, 1222
Bsp143I	GATC	3 cut(s)	96, 710, 1234
Bsp19I	CCATGG	2 cut(s)	349, 396
BspACI	CCGC	5 cut(s)	45, 726, 743, 1129, 1325
BspANI	GGCC	5 cut(s)	105, 281, 826, 1323, 1450
BspCNI	CTCAG	1 cut(s)	887
BspHI	TCATGA	1 cut(s)	1399
BspLI	GGNNCC	3 cut(s)	673, 900, 1449
BspMI	ACCTGC	1 cut(s)	1418
BspPI	GGATC	1 cut(s)	718
BspT107I	GGYRCC	1 cut(s)	671
BsrBI	CCGCTC	1 cut(s)	726
BsrI	ACTGG	1 cut(s)	1215
BssECI	CCNNGG	3 cut(s)	349, 396, 517
BssMI	GATC	3 cut(s)	96, 710, 1234
BssNI	GRCGYC	1 cut(s)	393
BssT1I	CCWWGG	2 cut(s)	349, 396
Bst2UI	CCWGG	2 cut(s)	518, 903
Bst4CI	ACNGT	5 cut(s)	441, 858, 946, 1184, 1444
BstACI	GRCGYC	1 cut(s)	393
BstAPI	GCANNNNNTGC	1 cut(s)	938
BstC8I	GCNNGC	6 cut(s)	279, 288, 378, 702, 1129, 1325
BstDEI	CTNAG	2 cut(s)	244, 874
BstDSI	CCRYGG	2 cut(s)	349, 396
BstENI	CCTNNNNNAGG	1 cut(s)	820
BstF5I	GGATG	5 cut(s)	812, 1070, 1093, 1210, 1338
BstH2I	RGCGCY	1 cut(s)	874
BstHHI	GCGC	2 cut(s)	277, 873
BstKTI	GATC	3 cut(s)	99, 713, 1237
BstMAI	GTCTC	1 cut(s)	1155
BstMBI	GATC	3 cut(s)	96, 710, 1234
BstMWI	GCNNNNNNNGC	6 cut(s)	283, 287, 599, 742, 938, 1456
BstNI	CCWGG	2 cut(s)	518, 903
BstNSI	RCATGY	2 cut(s)	436, 569
BstPAI	GACNNNNGTC	1 cut(s)	888
BstSCI	CCNGG	2 cut(s)	516, 901
BstSFI	CTRYAG	1 cut(s)	893
BstSLI	GKGCMC	1 cut(s)	1222
BstV1I	GCAGC	6 cut(s)	234, 1111, 1205, 1249, 1294, 1443
BstX2I	RGATCY	1 cut(s)	96
BstYI	RGATCY	1 cut(s)	96
BsuRI	GGCC	5 cut(s)	105, 281, 826, 1323, 1450
BtgI	CCRYGG	2 cut(s)	349, 396
BtrI	CACGTC	1 cut(s)	76
BtsCI	GGATG	5 cut(s)	812, 1070, 1093, 1210, 1338
BtsIMutI	CAGTG	6 cut(s)	854, 882, 942, 1196, 1222, 1449
BveI	ACCTGC	1 cut(s)	1418
Cac8I	GCNNGC	6 cut(s)	279, 288, 378, 702, 1129, 1325
CciI	TCATGA	1 cut(s)	1399
CfoI	GCGC	2 cut(s)	277, 873
Cfr13I	GGNCC	2 cut(s)	1322, 1448
CseI	GACGC	1 cut(s)	401
Csp6I	GTAC	1 cut(s)	360
CviAII	CATG	9 cut(s)	38, 283, 299, 350, 397, 433, 566, 1329, 1400
CviQI	GTAC	1 cut(s)	360
DdeI	CTNAG	2 cut(s)	244, 874
DpnI	GATC	3 cut(s)	98, 712, 1236
DpnII	GATC	3 cut(s)	96, 710, 1234
DraI	TTTAAA	2 cut(s)	834, 1011
DraIII	CACNNNGTG	1 cut(s)	247
EaeI	YGGCCR	2 cut(s)	103, 279
Ecl136II	GAGCTC	1 cut(s)	428
Eco130I	CCWWGG	2 cut(s)	349, 396
Eco24I	GRGCYC	1 cut(s)	430
Eco53kI	GAGCTC	1 cut(s)	428
Eco57I	CTGAAG	1 cut(s)	1220
Eco88I	CYCGRG	1 cut(s)	445
EcoICRI	GAGCTC	1 cut(s)	428
EcoNI	CCTNNNNNAGG	1 cut(s)	820
EcoRI	GAATTC	1 cut(s)	214
EcoRII	CCWGG	2 cut(s)	516, 901
EcoT14I	CCWWGG	2 cut(s)	349, 396
EcoT22I	ATGCAT	1 cut(s)	738
EcoT38I	GRGCYC	1 cut(s)	430
ErhI	CCWWGG	2 cut(s)	349, 396
FaeI	CATG	9 cut(s)	41, 286, 302, 353, 400, 436, 569, 1332, 1403
FaqI	GGGAC	1 cut(s)	534
FatI	CATG	9 cut(s)	37, 282, 298, 349, 396, 432, 565, 1328, 1399
FauI	CCCGC	3 cut(s)	52, 1136, 1332
FblI	GTMKAC	1 cut(s)	892
Fnu4HI	GCNGC	6 cut(s)	223, 1125, 1194, 1263, 1308, 1457
FokI	GGATG	5 cut(s)	799, 1077, 1080, 1217, 1325
FriOI	GRGCYC	1 cut(s)	430
Fsp4HI	GCNGC	6 cut(s)	223, 1125, 1194, 1263, 1308, 1457
FspBI	CTAG	4 cut(s)	389, 488, 929, 1266
GlaI	GCGC	2 cut(s)	276, 872
GluI	GCNGC	6 cut(s)	223, 1125, 1194, 1263, 1308, 1457
GsaI	CCCAGC	1 cut(s)	14
HaeII	RGCGCY	1 cut(s)	874
HaeIII	GGCC	5 cut(s)	105, 281, 826, 1323, 1450
HapII	CCGG	1 cut(s)	102
HgaI	GACGC	1 cut(s)	401
HhaI	GCGC	2 cut(s)	277, 873
Hin1I	GRCGYC	1 cut(s)	393
Hin1II	CATG	9 cut(s)	41, 286, 302, 353, 400, 436, 569, 1332, 1403
Hin6I	GCGC	2 cut(s)	275, 871
HinP1I	GCGC	2 cut(s)	275, 871
HindIII	AAGCTT	1 cut(s)	68
HinfI	GANTC	2 cut(s)	238, 622
HpaII	CCGG	1 cut(s)	102
HphI	GGTGA	4 cut(s)	413, 519, 1364, 1442
Hpy166II	GTNNAC	2 cut(s)	641, 893
Hpy188I	TCNGA	2 cut(s)	92, 715
Hpy188III	TCNNGA	7 cut(s)	145, 175, 389, 554, 619, 1032, 1400
Hpy8I	GTNNAC	2 cut(s)	641, 893
Hpy99I	CGWCG	2 cut(s)	181, 184
HpyAV	CCTTC	3 cut(s)	1195, 1290, 1353
HpyCH4III	ACNGT	5 cut(s)	441, 858, 946, 1184, 1444
HpyCH4IV	ACGT	4 cut(s)	75, 182, 970, 1036
HpyCH4V	TGCA	8 cut(s)	290, 368, 736, 759, 812, 1006, 1232, 1386
HpyF10VI	GCNNNNNNNGC	6 cut(s)	283, 287, 599, 742, 938, 1456
HpyF3I	CTNAG	2 cut(s)	244, 874
HpySE526I	ACGT	4 cut(s)	75, 182, 970, 1036
Hsp92I	GRCGYC	1 cut(s)	393
Hsp92II	CATG	9 cut(s)	41, 286, 302, 353, 400, 436, 569, 1332, 1403
HspAI	GCGC	2 cut(s)	275, 871
Kzo9I	GATC	3 cut(s)	96, 710, 1234
LmnI	GCTCC	4 cut(s)	425, 562, 1284, 1424
Lsp1109I	GCAGC	6 cut(s)	234, 1111, 1205, 1249, 1294, 1443
LweI	GCATC	2 cut(s)	821, 1055
MaeI	CTAG	4 cut(s)	389, 488, 929, 1266
MaeII	ACGT	4 cut(s)	75, 182, 970, 1036
MaeIII	GTNAC	2 cut(s)	544, 1478
MalI	GATC	3 cut(s)	98, 712, 1236
MbiI	CCGCTC	1 cut(s)	726
MboI	GATC	3 cut(s)	96, 710, 1234
MboII	GAAGA	1 cut(s)	1485
MfeI	CAATTG	1 cut(s)	705
MflI	RGATCY	1 cut(s)	96
MhlI	GDGCHC	2 cut(s)	430, 1222
MlsI	TGGCCA	1 cut(s)	281
MluNI	TGGCCA	1 cut(s)	281
MmeI	TCCRAC	2 cut(s)	215, 403
Mox20I	TGGCCA	1 cut(s)	281
Mph1103I	ATGCAT	1 cut(s)	738
MscI	TGGCCA	1 cut(s)	281
MseI	TTAA	4 cut(s)	597, 833, 1010, 1415
MslI	CAYNNNNRTG	1 cut(s)	303
Msp20I	TGGCCA	1 cut(s)	281
MspI	CCGG	1 cut(s)	102
MspR9I	CCNGG	2 cut(s)	518, 903
MunI	CAATTG	1 cut(s)	705
Mva1269I	GAATGC	1 cut(s)	736
MvaI	CCWGG	2 cut(s)	518, 903
MwoI	GCNNNNNNNGC	6 cut(s)	283, 287, 599, 742, 938, 1456
NcoI	CCATGG	2 cut(s)	349, 396
NdeII	GATC	3 cut(s)	96, 710, 1234
NlaIII	CATG	9 cut(s)	41, 286, 302, 353, 400, 436, 569, 1332, 1403
NlaIV	GGNNCC	3 cut(s)	673, 900, 1449
NsiI	ATGCAT	1 cut(s)	738
NspI	RCATGY	2 cut(s)	436, 569
PagI	TCATGA	1 cut(s)	1399
PaqCI	CACCTGC	1 cut(s)	1418
PctI	GAATGC	1 cut(s)	736
PfeI	GAWTC	2 cut(s)	238, 622
PfoI	TCCNGGA	1 cut(s)	901
PkrI	GCNGC	6 cut(s)	224, 1126, 1195, 1264, 1309, 1458
PshAI	GACNNNNGTC	1 cut(s)	888
Psp124BI	GAGCTC	1 cut(s)	430
Psp6I	CCWGG	2 cut(s)	516, 901
PspFI	CCCAGC	1 cut(s)	10
PspGI	CCWGG	2 cut(s)	516, 901
PspN4I	GGNNCC	3 cut(s)	673, 900, 1449
PspPI	GGNCC	2 cut(s)	1322, 1448
PsuI	RGATCY	1 cut(s)	96
RsaI	GTAC	1 cut(s)	361
RsaNI	GTAC	1 cut(s)	360
RseI	CAYNNNNRTG	1 cut(s)	303
SacI	GAGCTC	1 cut(s)	430
SaqAI	TTAA	4 cut(s)	597, 833, 1010, 1415
SatI	GCNGC	6 cut(s)	223, 1125, 1194, 1263, 1308, 1457
Sau3AI	GATC	3 cut(s)	96, 710, 1234
Sau96I	GGNCC	2 cut(s)	1322, 1448
ScrFI	CCNGG	2 cut(s)	518, 903
SduI	GDGCHC	2 cut(s)	430, 1222
SfaNI	GCATC	2 cut(s)	821, 1055
SfcI	CTRYAG	1 cut(s)	893
SmiMI	CAYNNNNRTG	1 cut(s)	303
SsiI	CCGC	5 cut(s)	45, 726, 743, 1129, 1325
SspMI	CTAG	4 cut(s)	389, 488, 929, 1266
SstI	GAGCTC	1 cut(s)	430
StyD4I	CCNGG	2 cut(s)	516, 901
StyI	CCWWGG	2 cut(s)	349, 396
TaaI	ACNGT	5 cut(s)	441, 858, 946, 1184, 1444
TaiI	ACGT	4 cut(s)	78, 185, 973, 1039
TaqI	TCGA	2 cut(s)	176, 218
TatI	WGTACW	1 cut(s)	359
TfiI	GAWTC	2 cut(s)	238, 622
Tru1I	TTAA	4 cut(s)	597, 833, 1010, 1415
Tru9I	TTAA	4 cut(s)	597, 833, 1010, 1415
TscAI	CASTG	6 cut(s)	861, 882, 949, 1203, 1222, 1449
TseI	GCWGC	6 cut(s)	222, 1124, 1193, 1262, 1307, 1456
TspDTI	ATGAA	5 cut(s)	17, 513, 816, 899, 1479
TspGWI	ACGGA	1 cut(s)	124
TspRI	CASTG	6 cut(s)	861, 882, 949, 1203, 1222, 1449
XagI	CCTNNNNNAGG	1 cut(s)	820
XapI	RAATTY	7 cut(s)	5, 130, 214, 478, 614, 829, 922
XbaI	TCTAGA	1 cut(s)	388
XceI	RCATGY	2 cut(s)	436, 569
XmiI	GTMKAC	1 cut(s)	892
XspI	CTAG	4 cut(s)	389, 488, 929, 1266
Zsp2I	ATGCAT	1 cut(s)	738

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