Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1C

Orthogroup ID

OG0009723

Physical Location & Seq

Genomic Coordinates Reverse (-)

66641122 .. 66647957

Gene Structure 6836 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1CG400400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1080 bp

ATGCTTGCTTATGTTCTAGACGCCATGGGTGATAGTCTTACAGCAGTAGTTGGAGCTCACATGCCACAGTTCTCGGGTGGAAACATTATCTTGGGAGATGGTCAAAATTTTGTGCTAGAGGCTGATGAATATGATGGTTGCTTCCTGGGACTATCACCTTATATAGCTGTTGTAACAAATCTGGATTGGGAGCATGTTGATATTTTCCAAAACGAGGAAGCAGTTAAAGCTACTTTCCATAAATTCCTGAATCTAATCAGGGTGGGTGGACATCTCATTTTATGTGGGGATAGTCAGGGTGCCTATTCCTTGCTGACTGATGTAAAGCAAGCAATTGGATCAGATACTTTGAGCGGTCTAATGCATTCTCCGCTACAAAAATGTTGCATTGGCTACATCATAACAACTTATGGAACTACAAGTTCTAATGAATGGAGTGCATCCTCAATTAGGCCAAATTTAAAGGGTGGTAGTGATTATACACTGTGTCATTGGGGGCGCTCAGTGGCAGACATCAGTCTACAGGTTCCAGGAGTTCATAATGTCCTAAATTCACTAGCAGTTATTGCCACTGTGATAGCATTATACAATAACCAACGTGAAATTACCAATACAATAAATGGTTTGAGGTTGCATTTAAACAATTTTATAGGCGTTTCAAGACGTTTTGAAATGATTGGCACAATATGTGGATGCGATATATATGATGATTATGCCCATCATCCAATGGAAGTTCAAGCAGTTATTCAAGCTGCCCGCCAGAAGTTCCCTATCAAGTCTCTTTTAGTGGTATTTCAGCCTCATACTTACAGTCGTTTAGCAGCACTGAAGGATGATTTTGCCAGTGCCCTCTGTGGTGCAGATCAAGTTGTAGTTAGAGAGGTTTATGCTGCTAGAGAAATAGATGTTGGGAGCGTTGGTGGAAGGGAGTTAGCTGCTTCTGTAATCGGCCCGCCATGTGAATACATCCCTTCTCTGGGTGATGTGGTAGAGAGGTTGGTATATCAAATATGCAAGAACCCTCATCATGATACCATTGTCTTAACACTTGGAGCAGGTACTTTATGTTTCTTTCAATAA

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

359

Amino Acids

39.01

Weight (kDa)

5.36

Isoelectric Point (pI)

27.28

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Mur_ligase_M	PF08245	37 - 100	9e-06	Mur ligase middle domain
Mur_ligase_C	PF02875	221 - 353	4.8e-15	Mur ligase, glutamate ligase domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

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)
Acc36I	ACCTGC	1 cut(s)	1046
AccB1I	GGYRCC	1 cut(s)	299
AccBSI	CCGCTC	1 cut(s)	354
AccI	GTMKAC	1 cut(s)	520
AciI	CCGC	4 cut(s)	354, 371, 757, 953
AclWI	GGATC	1 cut(s)	346
AcsI	RAATTY	4 cut(s)	106, 242, 457, 550
AcuI	CTGAAG	1 cut(s)	848
AcyI	GRCGYC	1 cut(s)	21
AfaI	GTAC	1 cut(s)	1060
AfiI	CCNNNNNNNGG	4 cut(s)	214, 450, 976, 977
AgsI	TTSAA	5 cut(s)	660, 671, 737, 749, 1076
AjnI	CCWGG	2 cut(s)	144, 529
AjuI	GAANNNNNNNTTGG	2 cut(s)	891, 923
AluBI	AGCT	5 cut(s)	56, 167, 230, 752, 935
AluI	AGCT	5 cut(s)	56, 167, 230, 752, 935
Alw21I	GWGCWC	1 cut(s)	58
Alw26I	GTCTC	1 cut(s)	783
AlwI	GGATC	1 cut(s)	346
Ama87I	CYCGRG	1 cut(s)	73
AoxI	GGCC	2 cut(s)	452, 949
ApeKI	GCWGC	4 cut(s)	752, 821, 890, 935
ApoI	RAATTY	4 cut(s)	106, 242, 457, 550
AspLEI	GCGC	1 cut(s)	501
AspS9I	GGNCC	1 cut(s)	950
AsuHPI	GGTGA	3 cut(s)	41, 147, 992
AvaI	CYCGRG	1 cut(s)	73
BaeGI	GKGCMC	1 cut(s)	850
BaeI	ACNNNNGTAYC	2 cut(s)	1023, 1056
BanI	GGYRCC	1 cut(s)	299
BanII	GRGCYC	1 cut(s)	58
Bbv12I	GWGCWC	1 cut(s)	58
BbvI	GCAGC	4 cut(s)	739, 833, 877, 922
BccI	CCATC	3 cut(s)	92, 128, 726
BciT130I	CCWGG	2 cut(s)	146, 531
BcoDI	GTCTC	1 cut(s)	783
BfaI	CTAG	4 cut(s)	17, 116, 557, 894
BfmI	CTRYAG	1 cut(s)	521
BfoI	RGCGCY	1 cut(s)	502
BfuAI	ACCTGC	1 cut(s)	1046
BisI	GCNGC	4 cut(s)	753, 822, 891, 936
BlsI	GCNGC	4 cut(s)	754, 823, 892, 937
Bme1390I	CCNGG	2 cut(s)	146, 531
BmeT110I	CYCGRG	1 cut(s)	73
BmgT120I	GGNCC	1 cut(s)	950
BmiI	GGNNCC	2 cut(s)	301, 528
BmrFI	CCNGG	2 cut(s)	146, 531
BmsI	GCATC	2 cut(s)	449, 683
BoxI	GACNNNNGTC	1 cut(s)	516
BsaHI	GRCGYC	1 cut(s)	21
BsaJI	CCNNGG	2 cut(s)	24, 145
BsaXI	ACNNNNNCTCC	2 cut(s)	904, 934
Bsc4I	CCNNNNNNNGG	4 cut(s)	214, 450, 976, 977
Bse1I	ACTGG	1 cut(s)	843
BseBI	CCWGG	2 cut(s)	146, 531
BseDI	CCNNGG	2 cut(s)	24, 145
BseGI	GGATG	5 cut(s)	440, 698, 721, 838, 966
BseLI	CCNNNNNNNGG	4 cut(s)	214, 450, 976, 977
BseMII	CTCAG	1 cut(s)	516
BseNI	ACTGG	1 cut(s)	843
BseSI	GKGCMC	1 cut(s)	850
BseXI	GCAGC	4 cut(s)	739, 833, 877, 922
BsgI	GTGCAG	1 cut(s)	879
BshFI	GGCC	2 cut(s)	454, 951
BshNI	GGYRCC	1 cut(s)	299
BsiHKAI	GWGCWC	1 cut(s)	58
BsiHKCI	CYCGRG	1 cut(s)	73
BslFI	GGGAC	1 cut(s)	162
BslI	CCNNNNNNNGG	4 cut(s)	214, 450, 976, 977
BsmAI	GTCTC	1 cut(s)	783
BsmFI	GGGAC	1 cut(s)	162
BsmI	GAATGC	1 cut(s)	364
BsnI	GGCC	2 cut(s)	454, 951
BsoBI	CYCGRG	1 cut(s)	73
Bsp1286I	GDGCHC	2 cut(s)	58, 850
Bsp143I	GATC	2 cut(s)	338, 862
Bsp19I	CCATGG	1 cut(s)	24
BspACI	CCGC	4 cut(s)	354, 371, 757, 953
BspANI	GGCC	2 cut(s)	454, 951
BspCNI	CTCAG	1 cut(s)	515
BspHI	TCATGA	1 cut(s)	1027
BspLI	GGNNCC	2 cut(s)	301, 528
BspMI	ACCTGC	1 cut(s)	1046
BspPI	GGATC	1 cut(s)	346
BspT107I	GGYRCC	1 cut(s)	299
BsrBI	CCGCTC	1 cut(s)	354
BsrI	ACTGG	1 cut(s)	843
BssECI	CCNNGG	2 cut(s)	24, 145
BssMI	GATC	2 cut(s)	338, 862
BssNI	GRCGYC	1 cut(s)	21
BssT1I	CCWWGG	1 cut(s)	24
Bst2UI	CCWGG	2 cut(s)	146, 531
Bst4CI	ACNGT	4 cut(s)	69, 486, 574, 812
BstACI	GRCGYC	1 cut(s)	21
BstAPI	GCANNNNNTGC	1 cut(s)	566
BstC8I	GCNNGC	4 cut(s)	6, 330, 757, 953
BstDEI	CTNAG	1 cut(s)	502
BstDSI	CCRYGG	1 cut(s)	24
BstENI	CCTNNNNNAGG	1 cut(s)	448
BstF5I	GGATG	5 cut(s)	440, 698, 721, 838, 966
BstH2I	RGCGCY	1 cut(s)	502
BstHHI	GCGC	1 cut(s)	501
BstKTI	GATC	2 cut(s)	341, 865
BstMAI	GTCTC	1 cut(s)	783
BstMBI	GATC	2 cut(s)	338, 862
BstMWI	GCNNNNNNNGC	3 cut(s)	227, 370, 566
BstNI	CCWGG	2 cut(s)	146, 531
BstNSI	RCATGY	2 cut(s)	64, 197
BstPAI	GACNNNNGTC	1 cut(s)	516
BstSCI	CCNGG	2 cut(s)	144, 529
BstSFI	CTRYAG	1 cut(s)	521
BstSLI	GKGCMC	1 cut(s)	850
BstV1I	GCAGC	4 cut(s)	739, 833, 877, 922
BsuRI	GGCC	2 cut(s)	454, 951
BtgI	CCRYGG	1 cut(s)	24
BtsCI	GGATG	5 cut(s)	440, 698, 721, 838, 966
BtsIMutI	CAGTG	5 cut(s)	482, 510, 570, 824, 850
BveI	ACCTGC	1 cut(s)	1046
Cac8I	GCNNGC	4 cut(s)	6, 330, 757, 953
CciI	TCATGA	1 cut(s)	1027
CfoI	GCGC	1 cut(s)	501
Cfr13I	GGNCC	1 cut(s)	950
CseI	GACGC	1 cut(s)	29
Csp6I	GTAC	1 cut(s)	1059
CviAII	CATG	5 cut(s)	25, 61, 194, 957, 1028
CviQI	GTAC	1 cut(s)	1059
DdeI	CTNAG	1 cut(s)	502
DpnI	GATC	2 cut(s)	340, 864
DpnII	GATC	2 cut(s)	338, 862
DraI	TTTAAA	2 cut(s)	462, 639
Ecl136II	GAGCTC	1 cut(s)	56
Eco130I	CCWWGG	1 cut(s)	24
Eco24I	GRGCYC	1 cut(s)	58
Eco53kI	GAGCTC	1 cut(s)	56
Eco57I	CTGAAG	1 cut(s)	848
Eco88I	CYCGRG	1 cut(s)	73
EcoICRI	GAGCTC	1 cut(s)	56
EcoNI	CCTNNNNNAGG	1 cut(s)	448
EcoRII	CCWGG	2 cut(s)	144, 529
EcoT14I	CCWWGG	1 cut(s)	24
EcoT22I	ATGCAT	1 cut(s)	366
EcoT38I	GRGCYC	1 cut(s)	58
ErhI	CCWWGG	1 cut(s)	24
FaeI	CATG	5 cut(s)	28, 64, 197, 960, 1031
FaqI	GGGAC	1 cut(s)	162
FatI	CATG	5 cut(s)	24, 60, 193, 956, 1027
FauI	CCCGC	2 cut(s)	764, 960
FblI	GTMKAC	1 cut(s)	520
Fnu4HI	GCNGC	4 cut(s)	753, 822, 891, 936
FokI	GGATG	5 cut(s)	427, 705, 708, 845, 953
FriOI	GRGCYC	1 cut(s)	58
Fsp4HI	GCNGC	4 cut(s)	753, 822, 891, 936
FspBI	CTAG	4 cut(s)	17, 116, 557, 894
GlaI	GCGC	1 cut(s)	500
GluI	GCNGC	4 cut(s)	753, 822, 891, 936
HaeII	RGCGCY	1 cut(s)	502
HaeIII	GGCC	2 cut(s)	454, 951
HgaI	GACGC	1 cut(s)	29
HhaI	GCGC	1 cut(s)	501
Hin1I	GRCGYC	1 cut(s)	21
Hin1II	CATG	5 cut(s)	28, 64, 197, 960, 1031
Hin6I	GCGC	1 cut(s)	499
HinP1I	GCGC	1 cut(s)	499
HinfI	GANTC	1 cut(s)	250
HphI	GGTGA	3 cut(s)	41, 147, 992
Hpy166II	GTNNAC	2 cut(s)	269, 521
Hpy188I	TCNGA	1 cut(s)	343
Hpy188III	TCNNGA	5 cut(s)	17, 182, 247, 660, 1028
Hpy8I	GTNNAC	2 cut(s)	269, 521
HpyAV	CCTTC	3 cut(s)	823, 918, 981
HpyCH4III	ACNGT	4 cut(s)	69, 486, 574, 812
HpyCH4IV	ACGT	2 cut(s)	598, 664
HpyCH4V	TGCA	6 cut(s)	364, 387, 440, 634, 860, 1014
HpyF10VI	GCNNNNNNNGC	3 cut(s)	227, 370, 566
HpyF3I	CTNAG	1 cut(s)	502
HpySE526I	ACGT	2 cut(s)	598, 664
Hsp92I	GRCGYC	1 cut(s)	21
Hsp92II	CATG	5 cut(s)	28, 64, 197, 960, 1031
HspAI	GCGC	1 cut(s)	499
Kzo9I	GATC	2 cut(s)	338, 862
LmnI	GCTCC	4 cut(s)	53, 190, 912, 1052
Lsp1109I	GCAGC	4 cut(s)	739, 833, 877, 922
LweI	GCATC	2 cut(s)	449, 683
MaeI	CTAG	4 cut(s)	17, 116, 557, 894
MaeII	ACGT	2 cut(s)	598, 664
MaeIII	GTNAC	1 cut(s)	172
MalI	GATC	2 cut(s)	340, 864
MbiI	CCGCTC	1 cut(s)	354
MboI	GATC	2 cut(s)	338, 862
MfeI	CAATTG	1 cut(s)	333
MhlI	GDGCHC	2 cut(s)	58, 850
MluCI	AATT	8 cut(s)	106, 242, 333, 447, 457, 550, 603, 643
MmeI	TCCRAC	1 cut(s)	31
MnlI	CCTC	9 cut(s)	112, 208, 454, 621, 810, 860, 874, 987, 1032
Mph1103I	ATGCAT	1 cut(s)	366
MseI	TTAA	4 cut(s)	225, 461, 638, 1043
MspR9I	CCNGG	2 cut(s)	146, 531
MunI	CAATTG	1 cut(s)	333
Mva1269I	GAATGC	1 cut(s)	364
MvaI	CCWGG	2 cut(s)	146, 531
MwoI	GCNNNNNNNGC	3 cut(s)	227, 370, 566
NcoI	CCATGG	1 cut(s)	24
NdeII	GATC	2 cut(s)	338, 862
NlaIII	CATG	5 cut(s)	28, 64, 197, 960, 1031
NlaIV	GGNNCC	2 cut(s)	301, 528
NsiI	ATGCAT	1 cut(s)	366
NspI	RCATGY	2 cut(s)	64, 197
PagI	TCATGA	1 cut(s)	1027
PctI	GAATGC	1 cut(s)	364
PfeI	GAWTC	1 cut(s)	250
PfoI	TCCNGGA	1 cut(s)	529
PkrI	GCNGC	4 cut(s)	754, 823, 892, 937
PshAI	GACNNNNGTC	1 cut(s)	516
Psp124BI	GAGCTC	1 cut(s)	58
Psp6I	CCWGG	2 cut(s)	144, 529
PspGI	CCWGG	2 cut(s)	144, 529
PspN4I	GGNNCC	2 cut(s)	301, 528
PspPI	GGNCC	1 cut(s)	950
RsaI	GTAC	1 cut(s)	1060
RsaNI	GTAC	1 cut(s)	1059
SacI	GAGCTC	1 cut(s)	58
SaqAI	TTAA	4 cut(s)	225, 461, 638, 1043
SatI	GCNGC	4 cut(s)	753, 822, 891, 936
Sau3AI	GATC	2 cut(s)	338, 862
Sau96I	GGNCC	1 cut(s)	950
ScrFI	CCNGG	2 cut(s)	146, 531
SduI	GDGCHC	2 cut(s)	58, 850
SfaNI	GCATC	2 cut(s)	449, 683
SfcI	CTRYAG	1 cut(s)	521
Sse9I	AATT	8 cut(s)	106, 242, 333, 447, 457, 550, 603, 643
SsiI	CCGC	4 cut(s)	354, 371, 757, 953
SspMI	CTAG	4 cut(s)	17, 116, 557, 894
SstI	GAGCTC	1 cut(s)	58
StyD4I	CCNGG	2 cut(s)	144, 529
StyI	CCWWGG	1 cut(s)	24
TaaI	ACNGT	4 cut(s)	69, 486, 574, 812
TaiI	ACGT	2 cut(s)	601, 667
TasI	AATT	8 cut(s)	106, 242, 333, 447, 457, 550, 603, 643
TfiI	GAWTC	1 cut(s)	250
Tru1I	TTAA	4 cut(s)	225, 461, 638, 1043
Tru9I	TTAA	4 cut(s)	225, 461, 638, 1043
TscAI	CASTG	5 cut(s)	489, 510, 577, 831, 850
TseI	GCWGC	4 cut(s)	752, 821, 890, 935
TspDTI	ATGAA	3 cut(s)	141, 444, 527
TspRI	CASTG	5 cut(s)	489, 510, 577, 831, 850
XagI	CCTNNNNNAGG	1 cut(s)	448
XapI	RAATTY	4 cut(s)	106, 242, 457, 550
XbaI	TCTAGA	1 cut(s)	16
XceI	RCATGY	2 cut(s)	64, 197
XmiI	GTMKAC	1 cut(s)	520
XspI	CTAG	4 cut(s)	17, 116, 557, 894
Zsp2I	ATGCAT	1 cut(s)	366

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