Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr3

Orthogroup ID

OG0001656

Physical Location & Seq

Genomic Coordinates Forward (+)

17394457 .. 17397352

Gene Structure 2896 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000012310

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1056 bp

ATGCAAGATGTAAGAGCCAAGATTTTCCCTTTCAAAAGAAGAAAGGTGAACGCACCTGAAACTATGCCTTCAGCACTGCCAGCTAGAAGAAAGGAGAGATCACTCTCGTCATTGGTGGTCAGTACTCCCAGAGTGTCAGCAACCCAGGCGACCATGACTGGAAGGAGAACTAAAGCTGTTGCAAGAAAGGCTTCTACTTTACAAGGATCCAGTTTTTTGGTTGAGAGGTCCGTTAATAAAGAGGACGGATCTGGGGAAGATCATGCCGAGAGCCGAAGCTCCCCGGAGGCCTCAGATAAGTCCTGTCAAAATGCCAGGCCGAGTTCGTTTTCTGCCGAACCCAGCGAACCTGTATCCAATAAAGAATCTGAGAATGGTGCTGAATCATGCGATGGGAAGTTAGACCTTTGGAAACCTCTAAATTGTTTGGTGGAAGTTGCAAATCGGACCAAGTCTCTGAAACCCAATTCACAAGGGTCTGAAAGAGTAGAAGCGGCTGTCATTCCCAATGAAACTCAAGTTCGTAAATTCAAGAATAAAGAAAACAAACAGAAATCAAAAGTTGAGGATGAAAAGAATAGCACTCATCCTCCCTCTCCTGAAACAATAAAACCTAAAAAGTTGCGCAGGGCTCGCCAAAAGAGGGAAGCTGTAGGAGAATCAAGCGTTACACCCCAAGCTGTTTTGGATGCAGCCAGTGGAAAACTTGAAAGAAGAGTTGGTCCAATTTGGTTCTCCCTAGTAGCTTCTGAAGAACAGGAAGGAGAAGAATCCTTGCCTCAGATTCCTACAAGTTATTTAAGAATAAAAGATGGAAGTGTGCCTGTCTCATTTATCCAGAAGTACCTAATGAGGAAGCTAGATCTCACTAGTGAAACTGAGGTTGAGATCAAATGCATGGGACAACCAGTGACCCCAACATTGGAGATGTATAATTTGGTTGACTTGTGGCTACAAACCGCATCACCTACACAAAGAATTCCAGCATCCATTGGTTCCTCTGCAAAGGATTTTGTGATGGTGCTCGGGTATTCTCGAAAGATTTCAAACTCCTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001101 GO:0003674 GO:0003824 GO:0004842 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006464 GO:0006807 GO:0006950 GO:0008150 GO:0008152 GO:0009414 GO:0009415 GO:0009628 GO:0009987 GO:0010035 GO:0016567 GO:0016740 GO:0019538 GO:0019787 GO:0032446 GO:0036211 GO:0042221 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0044424 GO:0044464 GO:0050896 GO:0051865 GO:0070647 GO:0071704 GO:0140096 GO:1901564 GO:1901700

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

zf-C3HC4 zf-C3HC4_2

Protein Analysis

352

Amino Acids

38.77

Weight (kDa)

9.53

Isoelectric Point (pI)

61.37

Instability Index

Protein Domains (Pfam)

No Pfam domains detected for this protein.

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

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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: OG0001656)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G06770 AT1G06770 AT1G06770 AT2G30580 AT2G30580 AT2G30580
fragaria_vesca	FvH4_2g22360 FvH4_2g22360 FvH4_2g22360 FvH4_2g22360 FvH4_2g22360 FvH4_2g22360 FvH4_2g22360 FvH4_2g22360 FvH4_2g22400 FvH4_6g02710 FvH4_6g02710
malus_domestica	MD04G1225500.v1.1 MD05G1204700.v1.1 MD10G1191800.v1.1 MD12G1242500.v1.1
prunus_persica	Prupe.6G344100_v2.0.a1 Prupe.6G344100_v2.0.a1 Prupe.8G231300_v2.0.a1
pyrus_communis	pycom04g19880 pycom05g19090 pycom10g16540 pycom12g22160
rosa_chinensis	RchiOBHm_Chr3g0450721 RchiOBHm_Chr6g0289351
rosa_laevigata	RLG00000012310 RLG00000025707
rosa_multiflora	Rmu_sc0000078.1_g000029 Rmu_sc0041561.1_g000001
rosa_roxburghii	Rroxscaffold_6G00428390 Rroxscaffold_7G00179330
rosa_rugosa	Rorug02G0629900 Rorug02G0630000 Rorug06G0202900
rosa_samantha	Rh3AG030800 Rh3BG031300 Rh3CG030100 Rh3DG031000 Rh6AG313800 Rh6BG321300 Rh6CG327600 Rh6DG313200
rosa_wichuraiana	Rw3G002380 Rw6G027130

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	626
AciI	CCGC	2 cut(s)	494, 960
AclWI	GGATC	3 cut(s)	201, 214, 256
AcsI	RAATTY	2 cut(s)	527, 978
AcuI	CTGAAG	2 cut(s)	54, 771
AfaI	GTAC	2 cut(s)	124, 845
AfiI	CCNNNNNNNGG	2 cut(s)	643, 922
AgsI	TTSAA	4 cut(s)	34, 532, 710, 1047
AhlI	ACTAGT	1 cut(s)	869
AjnI	CCWGG	2 cut(s)	144, 314
AjuI	GAANNNNNNNTTGG	2 cut(s)	702, 734
AluBI	AGCT	7 cut(s)	83, 176, 279, 650, 680, 746, 859
AluI	AGCT	7 cut(s)	83, 176, 279, 650, 680, 746, 859
Alw21I	GWGCWC	1 cut(s)	1026
Alw26I	GTCTC	2 cut(s)	459, 832
AlwI	GGATC	3 cut(s)	201, 214, 256
Ama87I	CYCGRG	1 cut(s)	1025
AoxI	GGCC	2 cut(s)	288, 317
ApeKI	GCWGC	1 cut(s)	692
ApoI	RAATTY	2 cut(s)	527, 978
Asp700I	GAANNNNTTC	2 cut(s)	190, 1042
AspLEI	GCGC	1 cut(s)	627
AspS9I	GGNCC	3 cut(s)	228, 447, 722
AsuC2I	CCSGG	1 cut(s)	284
AsuHPI	GGTGA	2 cut(s)	58, 957
AvaI	CYCGRG	1 cut(s)	1025
AvaII	GGWCC	3 cut(s)	228, 447, 722
BamHI	GGATCC	1 cut(s)	206
BanII	GRGCYC	1 cut(s)	634
Bbv12I	GWGCWC	1 cut(s)	1026
BbvI	GCAGC	1 cut(s)	704
BccI	CCATC	3 cut(s)	386, 806, 1012
BciT130I	CCWGG	2 cut(s)	146, 316
BciVI	GTATCC	1 cut(s)	364
BcnI	CCSGG	1 cut(s)	284
BcoDI	GTCTC	2 cut(s)	459, 832
BcuI	ACTAGT	1 cut(s)	869
BfaI	CTAG	4 cut(s)	84, 740, 860, 870
BfmI	CTRYAG	1 cut(s)	651
BfuI	GTATCC	1 cut(s)	364
BglII	AGATCT	1 cut(s)	862
BisI	GCNGC	2 cut(s)	495, 693
BlsI	GCNGC	2 cut(s)	496, 694
BmcAI	AGTACT	1 cut(s)	124
Bme1390I	CCNGG	3 cut(s)	146, 284, 316
Bme18I	GGWCC	3 cut(s)	228, 447, 722
BmeT110I	CYCGRG	1 cut(s)	1025
BmgT120I	GGNCC	3 cut(s)	228, 447, 722
BmiI	GGNNCC	2 cut(s)	208, 997
BmrFI	CCNGG	3 cut(s)	146, 284, 316
BmsI	GCATC	3 cut(s)	679, 971, 995
BpuEI	CTTGAG	1 cut(s)	501
BpuMI	CCSGG	1 cut(s)	284
BsaJI	CCNNGG	2 cut(s)	144, 282
BsaXI	ACNNNNNCTCC	2 cut(s)	574, 604
Bsc4I	CCNNNNNNNGG	2 cut(s)	643, 922
Bse1I	ACTGG	4 cut(s)	163, 210, 696, 908
BseBI	CCWGG	2 cut(s)	146, 316
BseDI	CCNNGG	2 cut(s)	144, 282
BseGI	GGATG	4 cut(s)	574, 586, 694, 986
BseLI	CCNNNNNNNGG	2 cut(s)	643, 922
BseMII	CTCAG	4 cut(s)	306, 360, 794, 870
BseNI	ACTGG	4 cut(s)	163, 210, 696, 908
BseXI	GCAGC	1 cut(s)	704
BseYI	CCCAGC	1 cut(s)	341
BshFI	GGCC	2 cut(s)	290, 319
BsiHKAI	GWGCWC	1 cut(s)	1026
BsiHKCI	CYCGRG	1 cut(s)	1025
BsiSI	CCGG	1 cut(s)	284
BslFI	GGGAC	1 cut(s)	915
BslI	CCNNNNNNNGG	2 cut(s)	643, 922
BsmAI	GTCTC	2 cut(s)	459, 832
BsmFI	GGGAC	1 cut(s)	915
BsnI	GGCC	2 cut(s)	290, 319
BsoBI	CYCGRG	1 cut(s)	1025
Bsp1286I	GDGCHC	2 cut(s)	634, 1026
Bsp143I	GATC	6 cut(s)	98, 206, 248, 259, 862, 888
BspACI	CCGC	2 cut(s)	494, 960
BspANI	GGCC	2 cut(s)	290, 319
BspCNI	CTCAG	4 cut(s)	305, 361, 793, 871
BspLI	GGNNCC	2 cut(s)	208, 997
BspPI	GGATC	3 cut(s)	201, 214, 256
BsrI	ACTGG	4 cut(s)	163, 210, 696, 908
BssECI	CCNNGG	2 cut(s)	144, 282
BssMI	GATC	6 cut(s)	98, 206, 248, 259, 862, 888
Bst2UI	CCWGG	2 cut(s)	146, 316
Bst6I	CTCTTC	1 cut(s)	709
BstC8I	GCNNGC	2 cut(s)	81, 634
BstDEI	CTNAG	4 cut(s)	292, 369, 780, 879
BstF5I	GGATG	4 cut(s)	574, 586, 694, 986
BstHHI	GCGC	1 cut(s)	627
BstKTI	GATC	6 cut(s)	101, 209, 251, 262, 865, 891
BstMAI	GTCTC	2 cut(s)	459, 832
BstMBI	GATC	6 cut(s)	98, 206, 248, 259, 862, 888
BstMWI	GCNNNNNNNGC	4 cut(s)	80, 146, 188, 633
BstNI	CCWGG	2 cut(s)	146, 316
BstSCI	CCNGG	3 cut(s)	144, 282, 314
BstSFI	CTRYAG	1 cut(s)	651
BstV1I	GCAGC	1 cut(s)	704
BstX2I	RGATCY	3 cut(s)	206, 248, 862
BstXI	CCANNNNNNTGG	1 cut(s)	217
BstYI	RGATCY	3 cut(s)	206, 248, 862
BsuI	GTATCC	1 cut(s)	364
BsuRI	GGCC	2 cut(s)	290, 319
BtgZI	GCGATG	1 cut(s)	405
BtsCI	GGATG	4 cut(s)	574, 586, 694, 986
BtsI	GCAGTG	1 cut(s)	74
BtsIMutI	CAGTG	3 cut(s)	74, 703, 915
Cac8I	GCNNGC	2 cut(s)	81, 634
CfoI	GCGC	1 cut(s)	627
Cfr13I	GGNCC	3 cut(s)	228, 447, 722
Csp6I	GTAC	2 cut(s)	123, 844
CviAII	CATG	4 cut(s)	154, 263, 387, 898
CviQI	GTAC	2 cut(s)	123, 844
DdeI	CTNAG	4 cut(s)	292, 369, 780, 879
DpnI	GATC	6 cut(s)	100, 208, 250, 261, 864, 890
DpnII	GATC	6 cut(s)	98, 206, 248, 259, 862, 888
Eam1104I	CTCTTC	1 cut(s)	709
EarI	CTCTTC	1 cut(s)	709
Eco147I	AGGCCT	1 cut(s)	290
Eco24I	GRGCYC	1 cut(s)	634
Eco47I	GGWCC	3 cut(s)	228, 447, 722
Eco57I	CTGAAG	2 cut(s)	54, 771
Eco88I	CYCGRG	1 cut(s)	1025
EcoRI	GAATTC	1 cut(s)	978
EcoRII	CCWGG	2 cut(s)	144, 314
EcoT22I	ATGCAT	1 cut(s)	899
EcoT38I	GRGCYC	1 cut(s)	634
FaeI	CATG	4 cut(s)	157, 266, 390, 901
FaiI	YATR	6 cut(s)	65, 155, 264, 388, 899, 933
FalI	AAGNNNNNCTT	2 cut(s)	175, 207
FaqI	GGGAC	1 cut(s)	915
FatI	CATG	4 cut(s)	153, 262, 386, 897
Fnu4HI	GCNGC	2 cut(s)	495, 693
FokI	GGATG	4 cut(s)	573, 581, 701, 973
FriOI	GRGCYC	1 cut(s)	634
Fsp4HI	GCNGC	2 cut(s)	495, 693
FspBI	CTAG	4 cut(s)	84, 740, 860, 870
FspI	TGCGCA	1 cut(s)	626
GlaI	GCGC	1 cut(s)	626
GluI	GCNGC	2 cut(s)	495, 693
GsaI	CCCAGC	1 cut(s)	345
HaeIII	GGCC	2 cut(s)	290, 319
HapII	CCGG	1 cut(s)	284
HhaI	GCGC	1 cut(s)	627
Hin1II	CATG	4 cut(s)	157, 266, 390, 901
Hin6I	GCGC	1 cut(s)	625
HinP1I	GCGC	1 cut(s)	625
HincII	GTYRAC	1 cut(s)	943
HindII	GTYRAC	1 cut(s)	943
HinfI	GANTC	5 cut(s)	365, 383, 659, 770, 784
HpaII	CCGG	1 cut(s)	284
HphI	GGTGA	2 cut(s)	58, 957
Hpy166II	GTNNAC	2 cut(s)	49, 943
Hpy188I	TCNGA	7 cut(s)	295, 370, 447, 459, 481, 751, 783
Hpy188III	TCNNGA	4 cut(s)	532, 599, 838, 1035
Hpy8I	GTNNAC	2 cut(s)	49, 943
HpyAV	CCTTC	3 cut(s)	78, 156, 755
HpyCH4V	TGCA	6 cut(s)	4, 182, 440, 692, 897, 1004
HpyF10VI	GCNNNNNNNGC	4 cut(s)	80, 146, 188, 633
HpyF3I	CTNAG	4 cut(s)	292, 369, 780, 879
Hsp92II	CATG	4 cut(s)	157, 266, 390, 901
HspAI	GCGC	1 cut(s)	625
Kzo9I	GATC	6 cut(s)	98, 206, 248, 259, 862, 888
LmnI	GCTCC	1 cut(s)	284
Lsp1109I	GCAGC	1 cut(s)	704
LweI	GCATC	3 cut(s)	679, 971, 995
MaeI	CTAG	4 cut(s)	84, 740, 860, 870
MaeIII	GTNAC	2 cut(s)	667, 910
MalI	GATC	6 cut(s)	100, 208, 250, 261, 864, 890
MboI	GATC	6 cut(s)	98, 206, 248, 259, 862, 888
MboII	GAAGA	6 cut(s)	51, 99, 269, 726, 764, 779
MflI	RGATCY	3 cut(s)	206, 248, 862
MhlI	GDGCHC	2 cut(s)	634, 1026
MluCI	AATT	6 cut(s)	421, 466, 527, 726, 934, 978
Mph1103I	ATGCAT	1 cut(s)	899
MroXI	GAANNNNTTC	2 cut(s)	190, 1042
MseI	TTAA	2 cut(s)	234, 800
MspI	CCGG	1 cut(s)	284
MspR9I	CCNGG	3 cut(s)	146, 284, 316
MvaI	CCWGG	2 cut(s)	146, 316
MwoI	GCNNNNNNNGC	4 cut(s)	80, 146, 188, 633
NciI	CCSGG	1 cut(s)	284
NdeII	GATC	6 cut(s)	98, 206, 248, 259, 862, 888
NlaIII	CATG	4 cut(s)	157, 266, 390, 901
NlaIV	GGNNCC	2 cut(s)	208, 997
NmeAIII	GCCGAG	2 cut(s)	292, 345
NmuCI	GTSAC	1 cut(s)	910
NsbI	TGCGCA	1 cut(s)	626
NsiI	ATGCAT	1 cut(s)	899
PceI	AGGCCT	1 cut(s)	290
PdmI	GAANNNNTTC	2 cut(s)	190, 1042
PfeI	GAWTC	5 cut(s)	365, 383, 659, 770, 784
PflFI	GACNNNGTC	1 cut(s)	451
PkrI	GCNGC	2 cut(s)	496, 694
Psp6I	CCWGG	2 cut(s)	144, 314
PspFI	CCCAGC	1 cut(s)	341
PspGI	CCWGG	2 cut(s)	144, 314
PspN4I	GGNNCC	2 cut(s)	208, 997
PspPI	GGNCC	3 cut(s)	228, 447, 722
PsuI	RGATCY	3 cut(s)	206, 248, 862
PsyI	GACNNNGTC	1 cut(s)	451
RsaI	GTAC	2 cut(s)	124, 845
RsaNI	GTAC	2 cut(s)	123, 844
SaqAI	TTAA	2 cut(s)	234, 800
SatI	GCNGC	2 cut(s)	495, 693
Sau3AI	GATC	6 cut(s)	98, 206, 248, 259, 862, 888
Sau96I	GGNCC	3 cut(s)	228, 447, 722
ScaI	AGTACT	1 cut(s)	124
ScrFI	CCNGG	3 cut(s)	146, 284, 316
SduI	GDGCHC	2 cut(s)	634, 1026
SfaNI	GCATC	3 cut(s)	679, 971, 995
SfcI	CTRYAG	1 cut(s)	651
SinI	GGWCC	3 cut(s)	228, 447, 722
SmlI	CTYRAG	1 cut(s)	516
SmoI	CTYRAG	1 cut(s)	516
SpeI	ACTAGT	1 cut(s)	869
Sse9I	AATT	6 cut(s)	421, 466, 527, 726, 934, 978
SseBI	AGGCCT	1 cut(s)	290
SsiI	CCGC	2 cut(s)	494, 960
SspMI	CTAG	4 cut(s)	84, 740, 860, 870
StuI	AGGCCT	1 cut(s)	290
StyD4I	CCNGG	3 cut(s)	144, 282, 314
TaqI	TCGA	1 cut(s)	1036
TasI	AATT	6 cut(s)	421, 466, 527, 726, 934, 978
TatI	WGTACW	1 cut(s)	122
TauI	GCSGC	1 cut(s)	497
TfiI	GAWTC	5 cut(s)	365, 383, 659, 770, 784
Tru1I	TTAA	2 cut(s)	234, 800
Tru9I	TTAA	2 cut(s)	234, 800
TscAI	CASTG	3 cut(s)	81, 703, 915
TseFI	GTSAC	1 cut(s)	910
TseI	GCWGC	1 cut(s)	692
Tsp45I	GTSAC	1 cut(s)	910
TspDTI	ATGAA	2 cut(s)	525, 585
TspGWI	ACGGA	2 cut(s)	220, 261
TspRI	CASTG	3 cut(s)	81, 703, 915
Tth111I	GACNNNGTC	1 cut(s)	451
VpaK11BI	GGWCC	3 cut(s)	228, 447, 722
XapI	RAATTY	2 cut(s)	527, 978
XmnI	GAANNNNTTC	2 cut(s)	190, 1042
XspI	CTAG	4 cut(s)	84, 740, 860, 870
ZrmI	AGTACT	1 cut(s)	124
Zsp2I	ATGCAT	1 cut(s)	899

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