Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr7

Orthogroup ID

OG0016443

Physical Location & Seq

Genomic Coordinates Forward (+)

46183101 .. 46189229

Gene Structure 6129 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000034614

Sequence Viewer

CDS Protein Promoter (2k)

Length: 885 bp

ATGTTCTTTGATGAAGAGGAAGACATTAATTATAATCTTTTTGCTACCCTTGAAATCTCCAACCAGAACCCGACCCTTCCCGTCCTCCTCCTTTTCTGCGGCGGACCAGCTCCTCTGCTTGAAGACGGTGAACATAATCCGAGTTTGAGGTCGGTGATTTGGAGAAAATTTGAGCTTTTCTTTCATAGAGAGGTAGCAATTGCAACTCGTGAGGAATATTATAAGGAAGCTACACTGTGTGTTTTCCGGTTGAAGTCCCTGAAGCAAGGGCAAGCCCGAAGTCTTCTAACACAAGCAGCTCACCACCATCCTGCTAAGTTGAACTTCTTCCAGAAAGGACTCAAGTCACTTGAGGCTATCGAGCCACATGTTAGGAGTCAGAATGAGAACCCCGGAGTCAATCCCAAATCTTTAGGAAACTTGAAAAATGCTAAAGTAAGGTGGATTTATGATATTGCAAATGTTTCGTCCTCCATGAATCTTATTGAAAAGACCCACACAGCAGATACAAGGAAGCCTACATATAAATGGTTGGGATTGAGAGGAAAAGATGCTATGAGTTCAGCTTCAGACGAGTCTAGAAAAAGAGCCTTTGGAACAGATATCACAAACGTTGTAAAAGGGGCAAAGAACAATTCAGAGGACTCGAAAGAAAATACAAAGAGCTACAAGTTTGGGCCTTTTGCCCCAGTTACTATTGCCAGAGCTGGGAATTTCAACATGAAGAAGGTTGACTGGGACAATTTGTCCTCTACGTACTTACCGTCCCTAGTATCAGAATCAAGGTTTCACCAAGTTATAAAGGAATTACTTCCAACTGTCTCTTACTCAAGGTCTTTCAACCTGTCTTTTGGTGAGGAATGTTACAAGCAAGGAGGATGTTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003677 GO:0003700 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006139 GO:0006259 GO:0006260 GO:0006261 GO:0006275 GO:0006355 GO:0006725 GO:0006807 GO:0007049 GO:0008150 GO:0008152 GO:0008156 GO:0009058 GO:0009059 GO:0009889 GO:0009890 GO:0009892 GO:0009987 GO:0010468 GO:0010556 GO:0010558 GO:0010564 GO:0010605 GO:0010948 GO:0019219 GO:0019222 GO:0022402 GO:0031323 GO:0031324 GO:0031326 GO:0031327 GO:0032875 GO:0032876 GO:0034641 GO:0034645 GO:0042023 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044424 GO:0044464 GO:0044786 GO:0045786 GO:0045934 GO:0046483 GO:0048519 GO:0048523 GO:0050789 GO:0050794 GO:0051052 GO:0051053 GO:0051171 GO:0051172 GO:0051252 GO:0051726 GO:0060255 GO:0065007 GO:0071704 GO:0080090 GO:0090304 GO:0090329 GO:0097159 GO:0140110 GO:1901360 GO:1901363 GO:1901576 GO:1903506 GO:2000104 GO:2000112 GO:2000113 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

E2F_TDP

Protein Analysis

295

Amino Acids

33.29

Weight (kDa)

9.0

Isoelectric Point (pI)

44.47

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
WHD_E2F_TDP	PF02319	141 - 179	3.5e-06	E2F/DP family winged-helix DNA-binding domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0016443)

Species	Orthologous Gene IDs
rosa_chinensis	RchiOBHm_Chr2g0118381 RchiOBHm_Chr5g0036461 RchiOBHm_Chr5g0067381 RchiOBHm_Chr6g0305371 RchiOBHm_Chr7g0214071
rosa_laevigata	RLG00000034614
rosa_roxburghii	Rroxscaffold_4G00316410
rosa_rugosa	Rorug03G0188300.1 Rorug04G0050200 Rorug04G0050300 Rorug05G0296500
rosa_samantha	Rh1AG221600 Rh3AG267500
rosa_wichuraiana	Rw3G025160 Rw5G041480

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	3 cut(s)	33, 222, 800
AciI	CCGC	2 cut(s)	99, 102
AclI	AACGTT	1 cut(s)	612
AcsI	RAATTY	2 cut(s)	167, 712
AcuI	CTGAAG	2 cut(s)	281, 552
AdeI	CACNNNGTG	1 cut(s)	239
AfaI	GTAC	1 cut(s)	758
AfiI	CCNNNNNNNGG	1 cut(s)	708
AflIII	ACRYGT	1 cut(s)	367
AgsI	TTSAA	8 cut(s)	53, 122, 253, 322, 424, 488, 718, 841
AhdI	GACNNNNNGTC	1 cut(s)	745
AluBI	AGCT	7 cut(s)	110, 175, 230, 299, 566, 666, 707
AluI	AGCT	7 cut(s)	110, 175, 230, 299, 566, 666, 707
Alw26I	GTCTC	1 cut(s)	826
AoxI	GGCC	1 cut(s)	677
ApeKI	GCWGC	1 cut(s)	296
ApoI	RAATTY	2 cut(s)	167, 712
ArsI	GACNNNNNNTTYG	2 cut(s)	452, 484
AseI	ATTAAT	1 cut(s)	27
Asp700I	GAANNNNTTC	2 cut(s)	326, 810
AspS9I	GGNCC	2 cut(s)	104, 677
AsuC2I	CCSGG	1 cut(s)	393
AsuHPI	GGTGA	5 cut(s)	140, 166, 293, 782, 866
AvaII	GGWCC	1 cut(s)	104
BauI	CACGAG	1 cut(s)	207
BbsI	GAAGAC	3 cut(s)	27, 129, 275
BbvI	GCAGC	1 cut(s)	308
BccI	CCATC	1 cut(s)	315
BcgI	CGANNNNNNTGC	2 cut(s)	447, 481
BcnI	CCSGG	1 cut(s)	393
BcoDI	GTCTC	1 cut(s)	826
BfaI	CTAG	2 cut(s)	579, 770
BisI	GCNGC	2 cut(s)	100, 297
BlsI	GCNGC	2 cut(s)	101, 298
Bme1390I	CCNGG	1 cut(s)	393
Bme18I	GGWCC	1 cut(s)	104
BmeRI	GACNNNNNGTC	1 cut(s)	745
BmgT120I	GGNCC	2 cut(s)	104, 677
BmrFI	CCNGG	1 cut(s)	393
BmrI	ACTGGG	2 cut(s)	683, 745
BmsI	GCATC	1 cut(s)	541
BmuI	ACTGGG	2 cut(s)	683, 745
BoxI	GACNNNNGTC	1 cut(s)	343
BpiI	GAAGAC	3 cut(s)	27, 129, 275
BpuEI	CTTGAG	3 cut(s)	326, 371, 814
BpuMI	CCSGG	1 cut(s)	393
BsaAI	YACGTR	1 cut(s)	756
BsaJI	CCNNGG	1 cut(s)	391
BsaWI	WCCGGW	1 cut(s)	246
Bsc4I	CCNNNNNNNGG	1 cut(s)	708
Bse1I	ACTGG	2 cut(s)	689, 740
BseDI	CCNNGG	1 cut(s)	391
BseGI	GGATG	2 cut(s)	307, 884
BseLI	CCNNNNNNNGG	1 cut(s)	708
BseNI	ACTGG	2 cut(s)	689, 740
BseRI	GAGGAG	2 cut(s)	77, 102
BseXI	GCAGC	1 cut(s)	308
BseYI	CCCAGC	1 cut(s)	707
BshFI	GGCC	1 cut(s)	679
BsiSI	CCGG	2 cut(s)	247, 393
BslFI	GGGAC	3 cut(s)	241, 751, 752
BslI	CCNNNNNNNGG	1 cut(s)	708
BsmAI	GTCTC	1 cut(s)	826
BsmFI	GGGAC	3 cut(s)	241, 751, 752
BsnI	GGCC	1 cut(s)	679
BspACI	CCGC	2 cut(s)	99, 102
BspANI	GGCC	1 cut(s)	679
BsrI	ACTGG	2 cut(s)	689, 740
BssECI	CCNNGG	1 cut(s)	391
BssSI	CACGAG	1 cut(s)	207
Bst2BI	CACGAG	1 cut(s)	207
Bst4CI	ACNGT	4 cut(s)	128, 237, 765, 820
Bst6I	CTCTTC	1 cut(s)	9
BstBAI	YACGTR	1 cut(s)	756
BstC8I	GCNNGC	1 cut(s)	273
BstDEI	CTNAG	1 cut(s)	315
BstF5I	GGATG	2 cut(s)	307, 884
BstMAI	GTCTC	1 cut(s)	826
BstNSI	RCATGY	1 cut(s)	371
BstPAI	GACNNNNGTC	1 cut(s)	343
BstSCI	CCNGG	1 cut(s)	391
BstSNI	TACGTA	1 cut(s)	756
BstV1I	GCAGC	1 cut(s)	308
BstV2I	GAAGAC	3 cut(s)	27, 129, 275
BsuRI	GGCC	1 cut(s)	679
BtsCI	GGATG	2 cut(s)	307, 884
BtsIMutI	CAGTG	1 cut(s)	233
Cac8I	GCNNGC	1 cut(s)	273
Cfr13I	GGNCC	2 cut(s)	104, 677
Csp6I	GTAC	1 cut(s)	757
CviAII	CATG	3 cut(s)	368, 475, 721
CviQI	GTAC	1 cut(s)	757
DdeI	CTNAG	1 cut(s)	315
DraIII	CACNNNGTG	1 cut(s)	239
DriI	GACNNNNNGTC	1 cut(s)	745
Eam1104I	CTCTTC	1 cut(s)	9
Eam1105I	GACNNNNNGTC	1 cut(s)	745
EarI	CTCTTC	1 cut(s)	9
EciI	GGCGGA	1 cut(s)	117
Eco105I	TACGTA	1 cut(s)	756
Eco32I	GATATC	1 cut(s)	604
Eco47I	GGWCC	1 cut(s)	104
Eco57I	CTGAAG	2 cut(s)	281, 552
EcoRV	GATATC	1 cut(s)	604
FaeI	CATG	3 cut(s)	371, 478, 724
FalI	AAGNNNNNCTT	2 cut(s)	308, 340
FaqI	GGGAC	3 cut(s)	241, 751, 752
FatI	CATG	3 cut(s)	367, 474, 720
Fnu4HI	GCNGC	2 cut(s)	100, 297
FokI	GGATG	1 cut(s)	294
Fsp4HI	GCNGC	2 cut(s)	100, 297
FspBI	CTAG	2 cut(s)	579, 770
GluI	GCNGC	2 cut(s)	100, 297
GsaI	CCCAGC	1 cut(s)	711
HaeIII	GGCC	1 cut(s)	679
HapII	CCGG	2 cut(s)	247, 393
Hin1II	CATG	3 cut(s)	371, 478, 724
HincII	GTYRAC	1 cut(s)	733
HindII	GTYRAC	1 cut(s)	733
HinfI	GANTC	7 cut(s)	339, 376, 396, 478, 575, 644, 779
HpaII	CCGG	2 cut(s)	247, 393
HphI	GGTGA	5 cut(s)	140, 166, 293, 782, 866
Hpy166II	GTNNAC	2 cut(s)	131, 733
Hpy188I	TCNGA	5 cut(s)	141, 381, 571, 640, 778
Hpy188III	TCNNGA	3 cut(s)	209, 331, 579
Hpy8I	GTNNAC	2 cut(s)	131, 733
HpyAV	CCTTC	2 cut(s)	86, 721
HpyCH4III	ACNGT	4 cut(s)	128, 237, 765, 820
HpyCH4IV	ACGT	2 cut(s)	612, 755
HpyCH4V	TGCA	2 cut(s)	203, 458
HpyF3I	CTNAG	1 cut(s)	315
HpySE526I	ACGT	2 cut(s)	612, 755
Hsp92II	CATG	3 cut(s)	371, 478, 724
LmnI	GCTCC	1 cut(s)	115
Lsp1109I	GCAGC	1 cut(s)	308
LweI	GCATC	1 cut(s)	541
MaeI	CTAG	2 cut(s)	579, 770
MaeII	ACGT	2 cut(s)	612, 755
MaeIII	GTNAC	3 cut(s)	345, 691, 863
MboII	GAAGA	6 cut(s)	26, 32, 134, 275, 319, 736
MfeI	CAATTG	1 cut(s)	198
MluCI	AATT	7 cut(s)	28, 167, 198, 634, 712, 742, 806
MlyI	GAGTC	5 cut(s)	333, 385, 405, 584, 638
MmeI	TCCRAC	2 cut(s)	84, 839
MroXI	GAANNNNTTC	2 cut(s)	326, 810
MseI	TTAA	1 cut(s)	27
MslI	CAYNNNNRTG	1 cut(s)	526
MspI	CCGG	2 cut(s)	247, 393
MspR9I	CCNGG	1 cut(s)	393
MunI	CAATTG	1 cut(s)	198
NciI	CCSGG	1 cut(s)	393
NlaIII	CATG	3 cut(s)	371, 478, 724
NmuCI	GTSAC	1 cut(s)	345
NspI	RCATGY	1 cut(s)	371
PciI	ACATGT	1 cut(s)	367
PcsI	WCGNNNNNNNCGW	1 cut(s)	761
PdmI	GAANNNNTTC	2 cut(s)	326, 810
PfeI	GAWTC	2 cut(s)	478, 779
PkrI	GCNGC	2 cut(s)	101, 298
PleI	GAGTC	5 cut(s)	333, 384, 404, 583, 638
PpsI	GAGTC	5 cut(s)	333, 384, 404, 583, 638
Ppu21I	YACGTR	1 cut(s)	756
PscI	ACATGT	1 cut(s)	367
PshAI	GACNNNNGTC	1 cut(s)	343
PshBI	ATTAAT	1 cut(s)	27
PsiI	TTATAA	3 cut(s)	33, 222, 800
Psp1406I	AACGTT	1 cut(s)	612
PspFI	CCCAGC	1 cut(s)	707
PspPI	GGNCC	2 cut(s)	104, 677
RsaI	GTAC	1 cut(s)	758
RsaNI	GTAC	1 cut(s)	757
RseI	CAYNNNNRTG	1 cut(s)	526
SaqAI	TTAA	1 cut(s)	27
SatI	GCNGC	2 cut(s)	100, 297
Sau96I	GGNCC	2 cut(s)	104, 677
SchI	GAGTC	5 cut(s)	333, 385, 405, 584, 638
ScrFI	CCNGG	1 cut(s)	393
SfaNI	GCATC	1 cut(s)	541
SinI	GGWCC	1 cut(s)	104
SmiMI	CAYNNNNRTG	1 cut(s)	526
SmlI	CTYRAG	3 cut(s)	341, 350, 829
SmoI	CTYRAG	3 cut(s)	341, 350, 829
SnaBI	TACGTA	1 cut(s)	756
Sse9I	AATT	7 cut(s)	28, 167, 198, 634, 712, 742, 806
SsiI	CCGC	2 cut(s)	99, 102
SspI	AATATT	1 cut(s)	218
SspMI	CTAG	2 cut(s)	579, 770
StyD4I	CCNGG	1 cut(s)	391
TaaI	ACNGT	4 cut(s)	128, 237, 765, 820
TaiI	ACGT	2 cut(s)	615, 758
TaqI	TCGA	2 cut(s)	360, 647
TasI	AATT	7 cut(s)	28, 167, 198, 634, 712, 742, 806
TauI	GCSGC	1 cut(s)	102
TfiI	GAWTC	2 cut(s)	478, 779
Tru1I	TTAA	1 cut(s)	27
Tru9I	TTAA	1 cut(s)	27
TscAI	CASTG	1 cut(s)	240
TseFI	GTSAC	1 cut(s)	345
TseI	GCWGC	1 cut(s)	296
Tsp45I	GTSAC	1 cut(s)	345
TspDTI	ATGAA	4 cut(s)	27, 173, 491, 737
TspRI	CASTG	1 cut(s)	240
VpaK11BI	GGWCC	1 cut(s)	104
VspI	ATTAAT	1 cut(s)	27
XapI	RAATTY	2 cut(s)	167, 712
XbaI	TCTAGA	1 cut(s)	578
XceI	RCATGY	1 cut(s)	371
XmnI	GAANNNNTTC	2 cut(s)	326, 810
XspI	CTAG	2 cut(s)	579, 770

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