Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6C

Orthogroup ID

OG0004114

Physical Location & Seq

Genomic Coordinates Forward (+)

55696747 .. 55697649

Gene Structure 903 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6CG369700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 813 bp

ATGTTAGTTCCAGTTGAGGAAGTGTGGAATGAATGCCTTAATGAAAGTGTTTTGTATAACCCACAAGGAAATTCCTTGCTGTATGTGGTGATACACATGAATGCCTATGCCCATTTGCTTTGGATTCAAAGAAGTTCTTCTGGTGTGACGTCTGGCAGTAACCTCATGGACATATGGGACTGTCTATGTAAAAATCTCGAAATAAGGGATGTTACATTGGAGGATGTTTCCAAGAAAGGGAATGTTGATCTTCGTTTGCTCTGTGGGGTGGCTTACGGAAGATCCTGGTTCAGTAGGTGGGGATACAAATTTTGGAGAGGGAGTTATGGAGTAGATGAAGTGAAGAATGAGATTGCCCTAGCTTGTCTCCGTAACCTTGACATTTCTCAGGTTGTTGAAGTGTTTCGCAAGGTGGAGGACCAATATGCTCTACTTCATCGTCTAGAGGGAGTACTTGAACGTTACGAAAGTCTCAGTCGTTCCCCATTCAAGACTTTAAGTGACTTGCTTGCGTTCATTCTGACTTATCCTGCCAAATCAATGATGGCAAAAGAGTCATGTACCATTGCTAGGATACCCCGCAAAAGTTGGACTAGGAAGAAAATAAAGGAGACGTTAAAGGTACTAAACAATATACTGGATAAGAGAGGCCCTGTAAGCAGGGAAGACCTCATTGAGGCAGTTAGCTCCGAAGTGAGTCCAAGTGAGCTACTGGACTATGCAATTTCAACAATGAAGAATCTGAAGTGTGGGAAGCACCAAATTGTAGCTTGCAAGGAGAATCCAATCTCAAATATGATGGAGTACGTATAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000212 GO:0000226 GO:0000228 GO:0000280 GO:0000785 GO:0000790 GO:0000791 GO:0003006 GO:0003674 GO:0003676 GO:0003677 GO:0003682 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005694 GO:0005719 GO:0006323 GO:0006355 GO:0006996 GO:0007010 GO:0007017 GO:0007049 GO:0007051 GO:0007059 GO:0007060 GO:0007140 GO:0007275 GO:0007276 GO:0008134 GO:0008150 GO:0009555 GO:0009889 GO:0009987 GO:0010032 GO:0010468 GO:0010556 GO:0016043 GO:0019219 GO:0019222 GO:0019953 GO:0022402 GO:0022412 GO:0022414 GO:0030154 GO:0030261 GO:0031323 GO:0031326 GO:0031974 GO:0031981 GO:0032501 GO:0032502 GO:0032504 GO:0033613 GO:0042393 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043565 GO:0044422 GO:0044424 GO:0044427 GO:0044428 GO:0044446 GO:0044454 GO:0044464 GO:0044703 GO:0045132 GO:0048229 GO:0048232 GO:0048235 GO:0048285 GO:0048609 GO:0048856 GO:0048869 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0051276 GO:0051321 GO:0051704 GO:0055046 GO:0060255 GO:0065007 GO:0070013 GO:0070192 GO:0071103 GO:0071840 GO:0080090 GO:0097159 GO:0098813 GO:0140013 GO:1901363 GO:1903046 GO:1903506 GO:1990188 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PHD

Protein Analysis

270

Amino Acids

30.92

Weight (kDa)

8.04

Isoelectric Point (pI)

50.16

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
WHD_plant_repro	PF25874	197 - 269	4.3e-08	Winged helix-turn-helix domain in plant reproductive proteins

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Publication-ready

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Orthologous Genes (Group: OG0004114)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G07714 ATMG00550
malus_domestica	MD10G1001200.v1.1
rosa_chinensis	RchiOBHm_Chr2g0092391 RchiOBHm_Chr2g0092501 RchiOBHm_Chr2g0092521 RchiOBHm_Chr2g0134011 RchiOBHm_Chr6g0294291
rosa_laevigata	RLG00000016321
rosa_multiflora	Rmu_co8274023.1_g000001 Rmu_sc0002503.1_g000019 Rmu_sc0004296.1_g000006 Rmu_sc0004296.1_g000007 Rmu_sc0004296.1_g000011 Rmu_sc0004296.1_g000012
rosa_roxburghii	Rroxscaffold_2G00110570 Rroxscaffold_2G00149000 Rroxscaffold_2G00149020
rosa_rugosa	Rorug02G0027300
rosa_samantha	Rh2AG071600 Rh2BG071500 Rh2BG073800 Rh2CG072900 Rh2CG075000 Rh2CG350900 Rh2CG351000 Rh2DG070100 Rh2DG072200 Rh2DG390100 Rh6AG355700 Rh6CG369700
rosa_wichuraiana	Rw2G005990 Rw6G030990

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	1 cut(s)	152
AciI	CCGC	1 cut(s)	580
AclI	AACGTT	1 cut(s)	460
AclWI	GGATC	1 cut(s)	276
AcsI	RAATTY	2 cut(s)	70, 308
AcuI	CTGAAG	1 cut(s)	764
AcyI	GRCGYC	1 cut(s)	149
AfaI	GTAC	4 cut(s)	453, 562, 624, 806
AfiI	CCNNNNNNNGG	3 cut(s)	237, 570, 676
AgsI	TTSAA	5 cut(s)	128, 398, 458, 490, 729
AjnI	CCWGG	1 cut(s)	284
AluBI	AGCT	4 cut(s)	362, 687, 709, 770
AluI	AGCT	4 cut(s)	362, 687, 709, 770
Alw26I	GTCTC	3 cut(s)	371, 476, 605
AlwI	GGATC	1 cut(s)	276
AoxI	GGCC	1 cut(s)	649
ApoI	RAATTY	2 cut(s)	70, 308
Asp700I	GAANNNNTTC	2 cut(s)	136, 402
AspS9I	GGNCC	2 cut(s)	418, 650
AsuHPI	GGTGA	1 cut(s)	100
AvaII	GGWCC	1 cut(s)	418
BbsI	GAAGAC	1 cut(s)	672
BccI	CCATC	2 cut(s)	538, 793
BciT130I	CCWGG	1 cut(s)	286
BciVI	GTATCC	2 cut(s)	296, 567
BcoDI	GTCTC	3 cut(s)	371, 476, 605
BfaI	CTAG	4 cut(s)	359, 443, 570, 594
BfuI	GTATCC	2 cut(s)	296, 567
BmcAI	AGTACT	1 cut(s)	453
Bme1390I	CCNGG	1 cut(s)	286
Bme18I	GGWCC	1 cut(s)	418
BmgT120I	GGNCC	2 cut(s)	418, 650
BmrFI	CCNGG	1 cut(s)	286
BpiI	GAAGAC	1 cut(s)	672
BsaAI	YACGTR	1 cut(s)	808
BsaHI	GRCGYC	1 cut(s)	149
BsaXI	ACNNNNNCTCC	2 cut(s)	307, 337
Bsc4I	CCNNNNNNNGG	3 cut(s)	237, 570, 676
Bse1I	ACTGG	3 cut(s)	11, 642, 717
Bse3DI	GCAATG	1 cut(s)	564
BseBI	CCWGG	1 cut(s)	286
BseGI	GGATG	2 cut(s)	214, 229
BseLI	CCNNNNNNNGG	3 cut(s)	237, 570, 676
BseMI	GCAATG	1 cut(s)	564
BseMII	CTCAG	2 cut(s)	401, 487
BseNI	ACTGG	3 cut(s)	11, 642, 717
BshFI	GGCC	1 cut(s)	651
BslFI	GGGAC	1 cut(s)	191
BslI	CCNNNNNNNGG	3 cut(s)	237, 570, 676
BsmAI	GTCTC	3 cut(s)	371, 476, 605
BsmBI	CGTCTC	1 cut(s)	605
BsmFI	GGGAC	1 cut(s)	191
BsmI	GAATGC	2 cut(s)	38, 106
BsnI	GGCC	1 cut(s)	651
Bsp143I	GATC	2 cut(s)	247, 281
BspACI	CCGC	1 cut(s)	580
BspANI	GGCC	1 cut(s)	651
BspCNI	CTCAG	2 cut(s)	400, 486
BspPI	GGATC	1 cut(s)	276
BsrDI	GCAATG	1 cut(s)	564
BsrI	ACTGG	3 cut(s)	11, 642, 717
BssMI	GATC	2 cut(s)	247, 281
BssNI	GRCGYC	1 cut(s)	149
Bst2UI	CCWGG	1 cut(s)	286
Bst4CI	ACNGT	1 cut(s)	182
BstACI	GRCGYC	1 cut(s)	149
BstBAI	YACGTR	1 cut(s)	808
BstC8I	GCNNGC	2 cut(s)	510, 772
BstDEI	CTNAG	2 cut(s)	387, 473
BstENI	CCTNNNNNAGG	1 cut(s)	674
BstF5I	GGATG	2 cut(s)	214, 229
BstKTI	GATC	2 cut(s)	250, 284
BstMAI	GTCTC	3 cut(s)	371, 476, 605
BstMBI	GATC	2 cut(s)	247, 281
BstMWI	GCNNNNNNNGC	1 cut(s)	657
BstNI	CCWGG	1 cut(s)	286
BstSCI	CCNGG	1 cut(s)	284
BstSNI	TACGTA	1 cut(s)	808
BstV2I	GAAGAC	1 cut(s)	672
BstX2I	RGATCY	1 cut(s)	281
BstYI	RGATCY	1 cut(s)	281
BsuI	GTATCC	2 cut(s)	296, 567
BsuRI	GGCC	1 cut(s)	651
BtsCI	GGATG	2 cut(s)	214, 229
Cac8I	GCNNGC	2 cut(s)	510, 772
Cfr13I	GGNCC	2 cut(s)	418, 650
Csp6I	GTAC	4 cut(s)	452, 561, 623, 805
CviAII	CATG	3 cut(s)	97, 166, 558
CviJI	RGCY	6 cut(s)	272, 362, 651, 687, 709, 770
CviKI_1	RGCY	6 cut(s)	272, 362, 651, 687, 709, 770
CviQI	GTAC	4 cut(s)	452, 561, 623, 805
DdeI	CTNAG	2 cut(s)	387, 473
DpnI	GATC	2 cut(s)	249, 283
DpnII	GATC	2 cut(s)	247, 281
Eco105I	TACGTA	1 cut(s)	808
Eco47I	GGWCC	1 cut(s)	418
Eco57I	CTGAAG	1 cut(s)	764
EcoNI	CCTNNNNNAGG	1 cut(s)	674
EcoO109I	RGGNCCY	1 cut(s)	650
EcoRII	CCWGG	1 cut(s)	284
Esp3I	CGTCTC	1 cut(s)	605
FaeI	CATG	3 cut(s)	100, 169, 561
FalI	AAGNNNNNCTT	2 cut(s)	121, 153
FaqI	GGGAC	1 cut(s)	191
FatI	CATG	3 cut(s)	96, 165, 557
FauI	CCCGC	1 cut(s)	587
FauNDI	CATATG	1 cut(s)	173
FokI	GGATG	2 cut(s)	221, 236
FspBI	CTAG	4 cut(s)	359, 443, 570, 594
HaeIII	GGCC	1 cut(s)	651
Hin1I	GRCGYC	1 cut(s)	149
Hin1II	CATG	3 cut(s)	100, 169, 561
HinfI	GANTC	5 cut(s)	124, 554, 697, 739, 781
HphI	GGTGA	1 cut(s)	100
Hpy188I	TCNGA	3 cut(s)	522, 691, 744
Hpy188III	TCNNGA	3 cut(s)	197, 443, 490
HpyCH4III	ACNGT	1 cut(s)	182
HpyCH4IV	ACGT	4 cut(s)	149, 460, 614, 807
HpyCH4V	TGCA	2 cut(s)	722, 774
HpyF10VI	GCNNNNNNNGC	1 cut(s)	657
HpyF3I	CTNAG	2 cut(s)	387, 473
HpySE526I	ACGT	4 cut(s)	149, 460, 614, 807
Hsp92I	GRCGYC	1 cut(s)	149
Hsp92II	CATG	3 cut(s)	100, 169, 561
Kzo9I	GATC	2 cut(s)	247, 281
LmnI	GCTCC	1 cut(s)	692
MaeI	CTAG	4 cut(s)	359, 443, 570, 594
MaeII	ACGT	4 cut(s)	149, 460, 614, 807
MaeIII	GTNAC	6 cut(s)	145, 158, 211, 371, 461, 500
MalI	GATC	2 cut(s)	249, 283
MboI	GATC	2 cut(s)	247, 281
MboII	GAAGA	7 cut(s)	129, 242, 291, 355, 610, 677, 748
MflI	RGATCY	1 cut(s)	281
MluCI	AATT	4 cut(s)	70, 308, 723, 762
MlyI	GAGTC	2 cut(s)	563, 706
MmeI	TCCRAC	1 cut(s)	569
MnlI	CCTC	9 cut(s)	10, 173, 214, 311, 409, 439, 641, 670, 680
MroXI	GAANNNNTTC	2 cut(s)	136, 402
MseI	TTAA	3 cut(s)	39, 497, 617
MslI	CAYNNNNRTG	1 cut(s)	99
MspR9I	CCNGG	1 cut(s)	286
Mva1269I	GAATGC	2 cut(s)	38, 106
MvaI	CCWGG	1 cut(s)	286
MwoI	GCNNNNNNNGC	1 cut(s)	657
NdeI	CATATG	1 cut(s)	173
NdeII	GATC	2 cut(s)	247, 281
NlaIII	CATG	3 cut(s)	100, 169, 561
NmuCI	GTSAC	2 cut(s)	145, 500
PctI	GAATGC	2 cut(s)	38, 106
PdmI	GAANNNNTTC	2 cut(s)	136, 402
PfeI	GAWTC	3 cut(s)	124, 739, 781
PleI	GAGTC	2 cut(s)	562, 705
PpsI	GAGTC	2 cut(s)	562, 705
Ppu21I	YACGTR	1 cut(s)	808
Psp1406I	AACGTT	1 cut(s)	460
Psp6I	CCWGG	1 cut(s)	284
PspGI	CCWGG	1 cut(s)	284
PspPI	GGNCC	2 cut(s)	418, 650
PsuI	RGATCY	1 cut(s)	281
RsaI	GTAC	4 cut(s)	453, 562, 624, 806
RsaNI	GTAC	4 cut(s)	452, 561, 623, 805
RseI	CAYNNNNRTG	1 cut(s)	99
SaqAI	TTAA	3 cut(s)	39, 497, 617
Sau3AI	GATC	2 cut(s)	247, 281
Sau96I	GGNCC	2 cut(s)	418, 650
ScaI	AGTACT	1 cut(s)	453
SchI	GAGTC	2 cut(s)	563, 706
ScrFI	CCNGG	1 cut(s)	286
SinI	GGWCC	1 cut(s)	418
SmiMI	CAYNNNNRTG	1 cut(s)	99
SnaBI	TACGTA	1 cut(s)	808
Sse9I	AATT	4 cut(s)	70, 308, 723, 762
SsiI	CCGC	1 cut(s)	580
SspMI	CTAG	4 cut(s)	359, 443, 570, 594
StyD4I	CCNGG	1 cut(s)	284
TaaI	ACNGT	1 cut(s)	182
TaiI	ACGT	4 cut(s)	152, 463, 617, 810
TaqI	TCGA	1 cut(s)	198
TasI	AATT	4 cut(s)	70, 308, 723, 762
TatI	WGTACW	1 cut(s)	451
TfiI	GAWTC	3 cut(s)	124, 739, 781
Tru1I	TTAA	3 cut(s)	39, 497, 617
Tru9I	TTAA	3 cut(s)	39, 497, 617
TseFI	GTSAC	2 cut(s)	145, 500
Tsp45I	GTSAC	2 cut(s)	145, 500
TspDTI	ATGAA	7 cut(s)	45, 57, 113, 351, 425, 505, 749
TspGWI	ACGGA	2 cut(s)	291, 359
VpaK11BI	GGWCC	1 cut(s)	418
XagI	CCTNNNNNAGG	1 cut(s)	674
XapI	RAATTY	2 cut(s)	70, 308
XbaI	TCTAGA	1 cut(s)	442
XcmI	CCANNNNNNNNNTGG	1 cut(s)	541
XmnI	GAANNNNTTC	2 cut(s)	136, 402
XspI	CTAG	4 cut(s)	359, 443, 570, 594
ZraI	GACGTC	1 cut(s)	150
ZrmI	AGTACT	1 cut(s)	453

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