Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr5

Orthogroup ID

OG0010225

Physical Location & Seq

Genomic Coordinates Forward (+)

24146533 .. 24148713

Gene Structure 2181 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000023464

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1011 bp

ATGGATTCAAATACCCATCTCAATCTGGAGCACCAACAGCCCCACCACCAACCCAATTCTGGGTTGCTCCGATTTCGCTCTGCTCCGAGCTCACTGTTCGCTGAGAACAACAACAACAACAACAGCGCCGATTTGGGGGTCAATAAGGGAACTTTAATCGAGGGTGGTTCCGACTCCGAGAGATTGTTCTCGAGATTCGTGAGCTACAGTCACAGTAACGACTCGGAATCGTGGCCGTCGAGTTTCCAGGAGTTCGAGGACAAATCTACGGTGACGGAGGCGGCTGTGACGCCGAGTCGTATGAGCTCACAGCATCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGGGGTTTCCTGGTCTTCCACCTCATTATCCGAGACAGAACTCGTTTGGGAGTGGTAATGGCTCTTATGGGTTGGTGGGTTCGGCCGCAGTGGATCATCACCCTCAAGCCAAGGCTGTTACTTCCAATCTTGTTCGGCAGAGTAGTTCTCCTGCTGGGCTTTTCTCCAACAACACCTCTGTTCAAAATGGATTCCCATTTGGAGCTTGGAATGATCCATCAAATTTTGCCGAGAATTTAGGTGGCATGAGAAGAGACCATGATAATGACCAGAAGTTATTCTCTGCTACTCAGAATGGTGATCTTGGGAACCGGATTCATATATTATCCCACCACTTGAGTTTACCAAAAAATTCAGCAGAAGTTGCCATGGAAAAGTTCCTCCAACTCCAAGATTCTGTACCTTGCAAAGTTAGAGCAAAGCGAGGTTGTGCCACTCATCCTCGAAGCATTGCAGAAAGGGTGAGAAGAACACGGATTAGTGAACGAATGAGGAAGCTACAAGAGCTTGTGCCGAACATGGACAAGCAAACAAATACAGCAGACATGTTGGACTTGGCTGTTGATTATATTAAAGAACTTCAGAAACAGTTTAAGAGTCTTAGCGATGTTCGAGCCAACTGCAAGTGTTTGAGTATGCAGAAGCCCGTTCAAAATCAGATAGTTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000976 GO:0000981 GO:0001046 GO:0001047 GO:0001067 GO:0001228 GO:0003006 GO:0003674 GO:0003676 GO:0003677 GO:0003690 GO:0003700 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006139 GO:0006351 GO:0006355 GO:0006357 GO:0006366 GO:0006725 GO:0006807 GO:0007275 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009314 GO:0009416 GO:0009628 GO:0009648 GO:0009791 GO:0009889 GO:0009891 GO:0009893 GO:0009987 GO:0010228 GO:0010467 GO:0010468 GO:0010556 GO:0010557 GO:0010604 GO:0010628 GO:0016070 GO:0018130 GO:0019219 GO:0019222 GO:0019438 GO:0022414 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0032501 GO:0032502 GO:0032774 GO:0034641 GO:0034645 GO:0034654 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043565 GO:0044212 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044424 GO:0044464 GO:0045893 GO:0045935 GO:0045944 GO:0046483 GO:0048518 GO:0048522 GO:0048573 GO:0048608 GO:0048731 GO:0048856 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051173 GO:0051252 GO:0051254 GO:0060255 GO:0061458 GO:0065007 GO:0071704 GO:0080090 GO:0090304 GO:0097159 GO:0097659 GO:0140110 GO:1901360 GO:1901362 GO:1901363 GO:1901576 GO:1902680 GO:1903506 GO:1903508 GO:1990837 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

HLH

Protein Analysis

337

Amino Acids

37.41

Weight (kDa)

8.65

Isoelectric Point (pI)

51.48

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
HLH	PF00010	264 - 309	6.6e-10	Helix-loop-helix DNA-binding 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: OG0010225)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G42280 AT2G42280 AT2G42280
fragaria_vesca	FvH4_6g22880 FvH4_6g22880
malus_domestica	MD12G1062600.v1.1 MD14G1063300.v1.1
prunus_persica	Prupe.7G071500_v2.0.a1
pyrus_communis	pycom12g05530 pycom14g05110
rosa_chinensis	RchiOBHm_Chr3g0480621
rosa_laevigata	RLG00000023464
rosa_multiflora	Rmu_sc0002752.1_g000005
rosa_roxburghii	Rroxscaffold_6G00401200
rosa_rugosa	Rorug03G0184300 Rorug03G0184400
rosa_samantha	Rh3AG236500 Rh3BG269400 Rh3CG266100 Rh3DG261900
rosa_wichuraiana	Rw3G021190

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	2 cut(s)	281, 429
AclWI	GGATC	2 cut(s)	444, 551
AcoI	YGGCCR	2 cut(s)	233, 426
AcsI	RAATTY	3 cut(s)	565, 577, 694
AcuI	CTGAAG	1 cut(s)	908
AcyI	GRCGYC	1 cut(s)	290
AfaI	GTAC	1 cut(s)	744
AfiI	CCNNNNNNNGG	3 cut(s)	59, 60, 135
AflIII	ACRYGT	1 cut(s)	888
AgsI	TTSAA	3 cut(s)	9, 527, 995
AhdI	GACNNNNNGTC	1 cut(s)	294
AjnI	CCWGG	2 cut(s)	246, 352
AluBI	AGCT	6 cut(s)	90, 204, 306, 548, 841, 850
AluI	AGCT	6 cut(s)	90, 204, 306, 548, 841, 850
Alw21I	GWGCWC	3 cut(s)	33, 92, 308
Alw26I	GTCTC	2 cut(s)	370, 591
AlwI	GGATC	2 cut(s)	444, 551
Ama87I	CYCGRG	1 cut(s)	190
AoxI	GGCC	2 cut(s)	233, 426
ApeKI	GCWGC	8 cut(s)	319, 322, 325, 328, 331, 334, 337, 340
ApoI	RAATTY	3 cut(s)	565, 577, 694
Asp700I	GAANNNNTTC	1 cut(s)	620
AspLEI	GCGC	1 cut(s)	128
AsuHPI	GGTGA	4 cut(s)	283, 434, 653, 817
AvaI	CYCGRG	1 cut(s)	190
BanII	GRGCYC	2 cut(s)	92, 308
BbsI	GAAGAC	1 cut(s)	350
Bbv12I	GWGCWC	3 cut(s)	33, 92, 308
BbvI	GCAGC	8 cut(s)	331, 334, 337, 340, 343, 346, 349, 352
BccI	CCATC	2 cut(s)	24, 568
BceAI	ACGGC	1 cut(s)	220
BcgI	CGANNNNNNTGC	2 cut(s)	945, 979
BciT130I	CCWGG	2 cut(s)	248, 354
BcoDI	GTCTC	2 cut(s)	370, 591
BfmI	CTRYAG	1 cut(s)	205
BfoI	RGCGCY	1 cut(s)	129
Bme1390I	CCNGG	2 cut(s)	248, 354
BmeRI	GACNNNNNGTC	1 cut(s)	294
BmeT110I	CYCGRG	1 cut(s)	190
BmiI	GGNNCC	2 cut(s)	169, 653
BmrFI	CCNGG	2 cut(s)	248, 354
BmsI	GCATC	1 cut(s)	322
BpiI	GAAGAC	1 cut(s)	350
BplI	GAGNNNNNCTC	2 cut(s)	475, 507
BpmI	CTGGAG	1 cut(s)	47
BpuEI	CTTGAG	2 cut(s)	432, 700
BsaHI	GRCGYC	1 cut(s)	290
BsaI	GGTCTC	1 cut(s)	591
BsaJI	CCNNGG	2 cut(s)	453, 711
BsaWI	WCCGGW	1 cut(s)	654
Bsc4I	CCNNNNNNNGG	3 cut(s)	59, 60, 135
Bse3DI	GCAATG	1 cut(s)	792
BseBI	CCWGG	2 cut(s)	248, 354
BseDI	CCNNGG	2 cut(s)	453, 711
BseGI	GGATG	1 cut(s)	781
BseLI	CCNNNNNNNGG	3 cut(s)	59, 60, 135
BseMI	GCAATG	1 cut(s)	792
BseMII	CTCAG	2 cut(s)	93, 647
BseX3I	CGGCCG	1 cut(s)	426
BseXI	GCAGC	8 cut(s)	331, 334, 337, 340, 343, 346, 349, 352
BseYI	CCCAGC	1 cut(s)	497
Bsh1285I	CGRYCG	1 cut(s)	429
BshFI	GGCC	2 cut(s)	235, 428
BsiEI	CGRYCG	1 cut(s)	429
BsiHKAI	GWGCWC	3 cut(s)	33, 92, 308
BsiHKCI	CYCGRG	1 cut(s)	190
BsiSI	CCGG	1 cut(s)	655
BslI	CCNNNNNNNGG	3 cut(s)	59, 60, 135
BsmAI	GTCTC	2 cut(s)	370, 591
BsnI	GGCC	2 cut(s)	235, 428
Bso31I	GGTCTC	1 cut(s)	591
BsoBI	CYCGRG	1 cut(s)	190
Bsp1286I	GDGCHC	3 cut(s)	33, 92, 308
Bsp143I	GATC	3 cut(s)	436, 556, 643
Bsp19I	CCATGG	1 cut(s)	711
BspACI	CCGC	2 cut(s)	281, 429
BspANI	GGCC	2 cut(s)	235, 428
BspCNI	CTCAG	2 cut(s)	94, 646
BspLI	GGNNCC	2 cut(s)	169, 653
BspPI	GGATC	2 cut(s)	444, 551
BspTNI	GGTCTC	1 cut(s)	591
BsrDI	GCAATG	1 cut(s)	792
BssECI	CCNNGG	2 cut(s)	453, 711
BssMI	GATC	3 cut(s)	436, 556, 643
BssNI	GRCGYC	1 cut(s)	290
BssT1I	CCWWGG	2 cut(s)	453, 711
Bst2UI	CCWGG	2 cut(s)	248, 354
Bst4CI	ACNGT	5 cut(s)	96, 209, 215, 271, 933
Bst6I	CTCTTC	1 cut(s)	589
BstACI	GRCGYC	1 cut(s)	290
BstAPI	GCANNNNNTGC	1 cut(s)	707
BstDEI	CTNAG	3 cut(s)	102, 633, 944
BstDSI	CCRYGG	1 cut(s)	711
BstF5I	GGATG	1 cut(s)	781
BstH2I	RGCGCY	1 cut(s)	129
BstHHI	GCGC	1 cut(s)	128
BstKTI	GATC	3 cut(s)	439, 559, 646
BstMAI	GTCTC	2 cut(s)	370, 591
BstMBI	GATC	3 cut(s)	436, 556, 643
BstMCI	CGRYCG	1 cut(s)	429
BstNI	CCWGG	2 cut(s)	248, 354
BstNSI	RCATGY	1 cut(s)	892
BstSCI	CCNGG	2 cut(s)	246, 352
BstSFI	CTRYAG	1 cut(s)	205
BstV1I	GCAGC	8 cut(s)	331, 334, 337, 340, 343, 346, 349, 352
BstV2I	GAAGAC	1 cut(s)	350
BstZI	CGGCCG	1 cut(s)	426
BsuRI	GGCC	2 cut(s)	235, 428
BtgI	CCRYGG	1 cut(s)	711
BtgZI	GCGATG	1 cut(s)	963
BtsCI	GGATG	1 cut(s)	781
BtsI	GCAGTG	1 cut(s)	438
BtsIMutI	CAGTG	2 cut(s)	92, 438
CfoI	GCGC	1 cut(s)	128
CseI	GACGC	1 cut(s)	298
Csp6I	GTAC	1 cut(s)	743
CviAII	CATG	5 cut(s)	589, 602, 712, 862, 889
CviQI	GTAC	1 cut(s)	743
DdeI	CTNAG	3 cut(s)	102, 633, 944
DpnI	GATC	3 cut(s)	438, 558, 645
DpnII	GATC	3 cut(s)	436, 556, 643
DriI	GACNNNNNGTC	1 cut(s)	294
EaeI	YGGCCR	2 cut(s)	233, 426
EagI	CGGCCG	1 cut(s)	426
Eam1104I	CTCTTC	1 cut(s)	589
Eam1105I	GACNNNNNGTC	1 cut(s)	294
EarI	CTCTTC	1 cut(s)	589
Ecl136II	GAGCTC	2 cut(s)	90, 306
EclXI	CGGCCG	1 cut(s)	426
Eco130I	CCWWGG	2 cut(s)	453, 711
Eco24I	GRGCYC	2 cut(s)	92, 308
Eco31I	GGTCTC	1 cut(s)	591
Eco52I	CGGCCG	1 cut(s)	426
Eco53kI	GAGCTC	2 cut(s)	90, 306
Eco57I	CTGAAG	1 cut(s)	908
Eco88I	CYCGRG	1 cut(s)	190
EcoICRI	GAGCTC	2 cut(s)	90, 306
EcoRII	CCWGG	2 cut(s)	246, 352
EcoT14I	CCWWGG	2 cut(s)	453, 711
EcoT38I	GRGCYC	2 cut(s)	92, 308
ErhI	CCWWGG	2 cut(s)	453, 711
FaeI	CATG	5 cut(s)	592, 605, 715, 865, 892
FatI	CATG	5 cut(s)	588, 601, 711, 861, 888
FokI	GGATG	1 cut(s)	768
FriOI	GRGCYC	2 cut(s)	92, 308
GlaI	GCGC	1 cut(s)	127
GsaI	CCCAGC	1 cut(s)	501
GsuI	CTGGAG	1 cut(s)	47
HaeII	RGCGCY	1 cut(s)	129
HaeIII	GGCC	2 cut(s)	235, 428
HapII	CCGG	1 cut(s)	655
HgaI	GACGC	1 cut(s)	298
HhaI	GCGC	1 cut(s)	128
Hin1I	GRCGYC	1 cut(s)	290
Hin1II	CATG	5 cut(s)	592, 605, 715, 865, 892
Hin6I	GCGC	1 cut(s)	126
HinP1I	GCGC	1 cut(s)	126
HpaII	CCGG	1 cut(s)	655
HphI	GGTGA	4 cut(s)	283, 434, 653, 817
Hpy166II	GTNNAC	2 cut(s)	686, 827
Hpy188I	TCNGA	9 cut(s)	71, 87, 172, 178, 226, 375, 636, 927, 1002
Hpy188III	TCNNGA	4 cut(s)	26, 190, 192, 199
Hpy8I	GTNNAC	2 cut(s)	686, 827
Hpy99I	CGWCG	1 cut(s)	241
HpyCH4III	ACNGT	5 cut(s)	96, 209, 215, 271, 933
HpyCH4V	TGCA	4 cut(s)	750, 797, 966, 982
HpyF3I	CTNAG	3 cut(s)	102, 633, 944
Hsp92I	GRCGYC	1 cut(s)	290
Hsp92II	CATG	5 cut(s)	592, 605, 715, 865, 892
HspAI	GCGC	1 cut(s)	126
Kzo9I	GATC	3 cut(s)	436, 556, 643
LmnI	GCTCC	4 cut(s)	28, 72, 88, 545
Lsp1109I	GCAGC	8 cut(s)	331, 334, 337, 340, 343, 346, 349, 352
LweI	GCATC	1 cut(s)	322
MaeIII	GTNAC	5 cut(s)	209, 215, 271, 286, 460
MalI	GATC	3 cut(s)	438, 558, 645
MboI	GATC	3 cut(s)	436, 556, 643
MboII	GAAGA	3 cut(s)	350, 606, 822
MhlI	GDGCHC	3 cut(s)	33, 92, 308
MluCI	AATT	4 cut(s)	55, 565, 577, 694
MlyI	GAGTC	4 cut(s)	167, 215, 304, 949
MmeI	TCCRAC	4 cut(s)	195, 534, 751, 873
MroXI	GAANNNNTTC	1 cut(s)	620
MseI	TTAA	3 cut(s)	155, 915, 936
MslI	CAYNNNNRTG	1 cut(s)	606
MspI	CCGG	1 cut(s)	655
MspR9I	CCNGG	2 cut(s)	248, 354
MvaI	CCWGG	2 cut(s)	248, 354
NcoI	CCATGG	1 cut(s)	711
NdeII	GATC	3 cut(s)	436, 556, 643
NlaIII	CATG	5 cut(s)	592, 605, 715, 865, 892
NlaIV	GGNNCC	2 cut(s)	169, 653
NmeAIII	GCCGAG	2 cut(s)	318, 598
NmuCI	GTSAC	3 cut(s)	209, 271, 286
NspI	RCATGY	1 cut(s)	892
PaeR7I	CTCGAG	1 cut(s)	190
PciI	ACATGT	1 cut(s)	888
PcsI	WCGNNNNNNNCGW	1 cut(s)	236
PdmI	GAANNNNTTC	1 cut(s)	620
PfeI	GAWTC	6 cut(s)	5, 195, 227, 534, 658, 737
PfoI	TCCNGGA	1 cut(s)	246
PleI	GAGTC	4 cut(s)	167, 215, 303, 948
PpsI	GAGTC	4 cut(s)	167, 215, 303, 948
PscI	ACATGT	1 cut(s)	888
Psp124BI	GAGCTC	2 cut(s)	92, 308
Psp6I	CCWGG	2 cut(s)	246, 352
PspFI	CCCAGC	1 cut(s)	497
PspGI	CCWGG	2 cut(s)	246, 352
PspN4I	GGNNCC	2 cut(s)	169, 653
RsaI	GTAC	1 cut(s)	744
RsaNI	GTAC	1 cut(s)	743
RseI	CAYNNNNRTG	1 cut(s)	606
SacI	GAGCTC	2 cut(s)	92, 308
SaqAI	TTAA	3 cut(s)	155, 915, 936
Sau3AI	GATC	3 cut(s)	436, 556, 643
SchI	GAGTC	4 cut(s)	167, 215, 304, 949
ScrFI	CCNGG	2 cut(s)	248, 354
SduI	GDGCHC	3 cut(s)	33, 92, 308
SfaNI	GCATC	1 cut(s)	322
SfcI	CTRYAG	1 cut(s)	205
Sfr274I	CTCGAG	1 cut(s)	190
SlaI	CTCGAG	1 cut(s)	190
SmiMI	CAYNNNNRTG	1 cut(s)	606
SmlI	CTYRAG	3 cut(s)	190, 447, 679
SmoI	CTYRAG	3 cut(s)	190, 447, 679
Sse9I	AATT	4 cut(s)	55, 565, 577, 694
SsiI	CCGC	2 cut(s)	281, 429
SstI	GAGCTC	2 cut(s)	92, 308
StyD4I	CCNGG	2 cut(s)	246, 352
StyI	CCWWGG	2 cut(s)	453, 711
TaaI	ACNGT	5 cut(s)	96, 209, 215, 271, 933
TaqI	TCGA	6 cut(s)	159, 191, 239, 255, 787, 955
TasI	AATT	4 cut(s)	55, 565, 577, 694
TauI	GCSGC	2 cut(s)	284, 431
TfiI	GAWTC	6 cut(s)	5, 195, 227, 534, 658, 737
Tru1I	TTAA	3 cut(s)	155, 915, 936
Tru9I	TTAA	3 cut(s)	155, 915, 936
TscAI	CASTG	2 cut(s)	99, 438
TseFI	GTSAC	3 cut(s)	209, 271, 286
TseI	GCWGC	8 cut(s)	319, 322, 325, 328, 331, 334, 337, 340
Tsp45I	GTSAC	3 cut(s)	209, 271, 286
TspDTI	ATGAA	1 cut(s)	650
TspGWI	ACGGA	2 cut(s)	290, 832
TspRI	CASTG	2 cut(s)	99, 438
XapI	RAATTY	3 cut(s)	565, 577, 694
XceI	RCATGY	1 cut(s)	892
XcmI	CCANNNNNNNNNTGG	2 cut(s)	56, 546
XhoI	CTCGAG	1 cut(s)	190
XmnI	GAANNNNTTC	1 cut(s)	620

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