Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5B

Orthogroup ID

OG0001693

Physical Location & Seq

Genomic Coordinates Forward (+)

28621685 .. 28652999

Gene Structure 31315 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5BG239200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 702 bp

ATGCAATATTTGATCATCTTACAATGTTTGGTTACTTCTCTTGTCCACATCGAAACTGAAGGTGCAGGCAAATGGTATGGCAGCATACTTTGTGACATTGACTACATATCTTGGCCTTTGGTGTGGCAGAATATTACTTGCTTGACATACTTTCTCCACCAAATGGTCTACTGCATCTTATCCGCTCAGCTTCTCCTCACCACCGACATCTCCTTCGTCACCGTTCTCTACACTCCCGTCAAGGATGAGATGGAAATGGCAAAGGCTGGTGGGGAAGTTGTGGTGGAGAAGTCTAATACATGTGAAGAATGTGGTGCTAGTTTCAAGAAACCTGCATATCTCAAGAAGCGTATGCAAAGCCATTCTCCTGAGAACAAGTTGTTTGATGCATGCATACTGATGAAGAAAACACACAAGGGCCGCCGGCCCACTACTTTTGAATACATATCAACCACAATTGAAGAGGGGCCTGCAGAGTTGCAGCTGCTAAAATTATTTTACTTTAAACGAAAGCTGCAAAAATTGTTAAAGGTCGATCATCTGTCACCAAGAAGAAAGAAAATGAATAACTTGTTTAAACTCCAGCTGCCAACTGACGAAGGTCCACCGGGAGGAAAACATTCAAAGTTATCGATGAAGCAGAAAAAATATGAACTGCAAATAAATTTATGTGTAACAAAACTCGCATTACCAACAGCTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000182 GO:0003674 GO:0003676 GO:0003677 GO:0003690 GO:0003700 GO:0003723 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005730 GO:0006355 GO:0008097 GO:0008150 GO:0009889 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0019843 GO:0022613 GO:0031323 GO:0031326 GO:0031974 GO:0031981 GO:0042254 GO:0042273 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043565 GO:0044085 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0060255 GO:0065007 GO:0070013 GO:0071840 GO:0080084 GO:0080090 GO:0097159 GO:0140110 GO:1901363 GO:1903506 GO:1990837 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PPR zf-C2H2

Protein Analysis

233

Amino Acids

26.73

Weight (kDa)

9.14

Isoelectric Point (pI)

52.12

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

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0001693)

Species	Orthologous Gene IDs
malus_domestica	MD15G1186700.v1.1
prunus_persica	Prupe.4G066100_v2.0.a1
rosa_chinensis	RchiOBHm_Chr1g0336331 RchiOBHm_Chr6g0290001 RchiOBHm_Chr7g0227531
rosa_laevigata	RLG00000002888 RLG00000019365
rosa_multiflora	Rmu_sc0000565.1_g000023 Rmu_sc0000776.1_g000047 Rmu_sc0002131.1_g000031 Rmu_sc0002701.1_g000052 Rmu_sc0003318.1_g000004 Rmu_sc0004517.1_g000008 Rmu_sc0004877.1_g000002 Rmu_sc0039095.1_g000001
rosa_roxburghii	Rroxscaffold_1G00033520 Rroxscaffold_1G00040810 Rroxscaffold_1G00040820 Rroxscaffold_2G00107400 Rroxscaffold_2G00116610 Rroxscaffold_3G00224610 Rroxscaffold_4G00304390 Rroxscaffold_4G00304400 Rroxscaffold_4G00315830 Rroxscaffold_5G00346140 Rroxscaffold_5G00380560 Rroxscaffold_6G00389400 Rroxscaffold_7G00183550 Rroxscaffold_7G00205640
rosa_rugosa	Rorug06G0035900
rosa_samantha	Rh1AG116800 Rh2BG425100 Rh2CG611600 Rh2DG432400 Rh3CG233600 Rh4AG247700 Rh4BG058900 Rh4CG156400 Rh5AG268300 Rh5AG485100 Rh5BG239200 Rh5BG398300 Rh6CG191700 Rh7AG359900 Rh7AG382100 Rh7AG403900 Rh7CG188000 Rh7CG378300 Rh7DG395000

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	340
AccB7I	CCANNNNNTGG	1 cut(s)	163
AccBSI	CCGCTC	1 cut(s)	185
AccI	GTMKAC	1 cut(s)	168
AciI	CCGC	2 cut(s)	183, 421
AcsI	RAATTY	1 cut(s)	664
AcuI	CTGAAG	1 cut(s)	78
AfiI	CCNNNNNNNGG	2 cut(s)	163, 611
AflIII	ACRYGT	1 cut(s)	299
AgsI	TTSAA	4 cut(s)	325, 440, 461, 624
AluBI	AGCT	5 cut(s)	190, 484, 514, 586, 698
AluI	AGCT	5 cut(s)	190, 484, 514, 586, 698
AoxI	GGCC	4 cut(s)	113, 418, 425, 467
ApeKI	GCWGC	5 cut(s)	81, 481, 484, 514, 586
ApoI	RAATTY	1 cut(s)	664
ArsI	GACNNNNNNTTYG	2 cut(s)	197, 229
Asp700I	GAANNNNTTC	1 cut(s)	619
AspS9I	GGNCC	4 cut(s)	418, 426, 467, 602
AsuC2I	CCSGG	1 cut(s)	609
AsuHPI	GGTGA	3 cut(s)	190, 211, 537
AvaII	GGWCC	1 cut(s)	602
BbvI	GCAGC	5 cut(s)	93, 471, 493, 501, 573
BccI	CCATC	1 cut(s)	244
BclI	TGATCA	1 cut(s)	12
BcnI	CCSGG	1 cut(s)	609
BfaI	CTAG	1 cut(s)	318
BfmI	CTRYAG	1 cut(s)	471
BfuAI	ACCTGC	1 cut(s)	340
BisI	GCNGC	6 cut(s)	82, 421, 482, 485, 515, 587
BlpI	GCTNAGC	1 cut(s)	186
BlsI	GCNGC	6 cut(s)	83, 422, 483, 486, 516, 588
Bme1390I	CCNGG	1 cut(s)	609
Bme18I	GGWCC	1 cut(s)	602
BmgT120I	GGNCC	4 cut(s)	418, 426, 467, 602
BmiI	GGNNCC	1 cut(s)	468
BmrFI	CCNGG	1 cut(s)	609
BmsI	GCATC	2 cut(s)	183, 376
BoxI	GACNNNNGTC	1 cut(s)	600
BpmI	CTGGAG	1 cut(s)	566
Bpu1102I	GCTNAGC	1 cut(s)	186
BpuEI	CTTGAG	1 cut(s)	326
BpuMI	CCSGG	1 cut(s)	609
Bsa29I	ATCGAT	1 cut(s)	632
Bsc4I	CCNNNNNNNGG	2 cut(s)	163, 611
Bse118I	RCCGGY	1 cut(s)	423
BseCI	ATCGAT	1 cut(s)	632
BseGI	GGATG	1 cut(s)	250
BseLI	CCNNNNNNNGG	2 cut(s)	163, 611
BseMII	CTCAG	2 cut(s)	200, 360
BseRI	GAGGAG	1 cut(s)	185
BseXI	GCAGC	5 cut(s)	93, 471, 493, 501, 573
BsgI	GTGCAG	1 cut(s)	84
BshFI	GGCC	4 cut(s)	115, 420, 427, 469
BshVI	ATCGAT	1 cut(s)	632
BsiSI	CCGG	2 cut(s)	424, 608
BslI	CCNNNNNNNGG	2 cut(s)	163, 611
BsnI	GGCC	4 cut(s)	115, 420, 427, 469
Bsp143I	GATC	2 cut(s)	12, 535
Bsp1720I	GCTNAGC	1 cut(s)	186
BspACI	CCGC	2 cut(s)	183, 421
BspANI	GGCC	4 cut(s)	115, 420, 427, 469
BspCNI	CTCAG	2 cut(s)	199, 361
BspDI	ATCGAT	1 cut(s)	632
BspLI	GGNNCC	1 cut(s)	468
BspMAI	CTGCAG	1 cut(s)	475
BspMI	ACCTGC	1 cut(s)	340
BsrBI	CCGCTC	1 cut(s)	185
BsrFI	RCCGGY	1 cut(s)	423
BssAI	RCCGGY	1 cut(s)	423
BssMI	GATC	2 cut(s)	12, 535
Bst4CI	ACNGT	1 cut(s)	223
Bst6I	CTCTTC	1 cut(s)	456
BstC8I	GCNNGC	4 cut(s)	67, 391, 425, 471
BstDEI	CTNAG	2 cut(s)	186, 369
BstF5I	GGATG	1 cut(s)	250
BstKTI	GATC	2 cut(s)	15, 538
BstMBI	GATC	2 cut(s)	12, 535
BstNSI	RCATGY	2 cut(s)	303, 393
BstPAI	GACNNNNGTC	1 cut(s)	600
BstSCI	CCNGG	1 cut(s)	607
BstSFI	CTRYAG	1 cut(s)	471
BstV1I	GCAGC	5 cut(s)	93, 471, 493, 501, 573
Bsu15I	ATCGAT	1 cut(s)	632
BsuRI	GGCC	4 cut(s)	115, 420, 427, 469
BsuTUI	ATCGAT	1 cut(s)	632
BtsCI	GGATG	1 cut(s)	250
BveI	ACCTGC	1 cut(s)	340
Cac8I	GCNNGC	4 cut(s)	67, 391, 425, 471
Cfr10I	RCCGGY	1 cut(s)	423
Cfr13I	GGNCC	4 cut(s)	418, 426, 467, 602
ClaI	ATCGAT	1 cut(s)	632
CspCI	CAANNNNNGTGG	2 cut(s)	418, 453
CviAII	CATG	2 cut(s)	300, 390
DdeI	CTNAG	2 cut(s)	186, 369
DpnI	GATC	2 cut(s)	14, 537
DpnII	GATC	2 cut(s)	12, 535
DraI	TTTAAA	2 cut(s)	505, 577
Eam1104I	CTCTTC	1 cut(s)	456
EarI	CTCTTC	1 cut(s)	456
Eco47I	GGWCC	1 cut(s)	602
Eco57I	CTGAAG	1 cut(s)	78
EcoO109I	RGGNCCY	1 cut(s)	467
EcoT22I	ATGCAT	2 cut(s)	391, 395
FaeI	CATG	2 cut(s)	303, 393
FatI	CATG	2 cut(s)	299, 389
FbaI	TGATCA	1 cut(s)	12
FblI	GTMKAC	1 cut(s)	168
Fnu4HI	GCNGC	6 cut(s)	82, 421, 482, 485, 515, 587
FokI	GGATG	1 cut(s)	257
Fsp4HI	GCNGC	6 cut(s)	82, 421, 482, 485, 515, 587
FspBI	CTAG	1 cut(s)	318
GluI	GCNGC	6 cut(s)	82, 421, 482, 485, 515, 587
GsuI	CTGGAG	1 cut(s)	566
HaeIII	GGCC	4 cut(s)	115, 420, 427, 469
HapII	CCGG	2 cut(s)	424, 608
Hin1II	CATG	2 cut(s)	303, 393
HpaII	CCGG	2 cut(s)	424, 608
HphI	GGTGA	3 cut(s)	190, 211, 537
Hpy166II	GTNNAC	3 cut(s)	46, 169, 605
Hpy188III	TCNNGA	3 cut(s)	325, 343, 368
Hpy8I	GTNNAC	3 cut(s)	46, 169, 605
HpyAV	CCTTC	3 cut(s)	53, 223, 593
HpyCH4III	ACNGT	1 cut(s)	223
HpyF3I	CTNAG	2 cut(s)	186, 369
Hsp92II	CATG	2 cut(s)	303, 393
KroI	GCCGGC	1 cut(s)	423
KroNI	GCCGGC	1 cut(s)	425
Ksp22I	TGATCA	1 cut(s)	12
Kzo9I	GATC	2 cut(s)	12, 535
LpnPI	CCDG	8 cut(s)	51, 252, 345, 381, 437, 483, 596, 621
Lsp1109I	GCAGC	5 cut(s)	93, 471, 493, 501, 573
LweI	GCATC	2 cut(s)	183, 376
MaeI	CTAG	1 cut(s)	318
MaeIII	GTNAC	5 cut(s)	31, 92, 217, 543, 673
MalI	GATC	2 cut(s)	14, 537
MbiI	CCGCTC	1 cut(s)	185
MboI	GATC	2 cut(s)	12, 535
MboII	GAAGA	4 cut(s)	317, 415, 473, 564
MfeI	CAATTG	1 cut(s)	456
MluCI	AATT	4 cut(s)	456, 491, 521, 664
MnlI	CCTC	3 cut(s)	206, 457, 605
Mph1103I	ATGCAT	2 cut(s)	391, 395
MroNI	GCCGGC	1 cut(s)	423
MroXI	GAANNNNTTC	1 cut(s)	619
MseI	TTAA	4 cut(s)	504, 527, 576, 700
MslI	CAYNNNNRTG	1 cut(s)	398
MspA1I	CMGCKG	2 cut(s)	484, 586
MspI	CCGG	2 cut(s)	424, 608
MspR9I	CCNGG	1 cut(s)	609
MssI	GTTTAAAC	1 cut(s)	577
MunI	CAATTG	1 cut(s)	456
NaeI	GCCGGC	1 cut(s)	425
NciI	CCSGG	1 cut(s)	609
NdeII	GATC	2 cut(s)	12, 535
NgoMIV	GCCGGC	1 cut(s)	423
NlaIII	CATG	2 cut(s)	303, 393
NlaIV	GGNNCC	1 cut(s)	468
NmuCI	GTSAC	3 cut(s)	92, 217, 543
NsiI	ATGCAT	2 cut(s)	391, 395
NspI	RCATGY	2 cut(s)	303, 393
PaeI	GCATGC	1 cut(s)	393
PciI	ACATGT	1 cut(s)	299
PdiI	GCCGGC	1 cut(s)	425
PdmI	GAANNNNTTC	1 cut(s)	619
PflMI	CCANNNNNTGG	1 cut(s)	163
PkrI	GCNGC	6 cut(s)	83, 422, 483, 486, 516, 588
PmeI	GTTTAAAC	1 cut(s)	577
PscI	ACATGT	1 cut(s)	299
PshAI	GACNNNNGTC	1 cut(s)	600
PspN4I	GGNNCC	1 cut(s)	468
PspPI	GGNCC	4 cut(s)	418, 426, 467, 602
PstI	CTGCAG	1 cut(s)	475
PvuII	CAGCTG	2 cut(s)	484, 586
RseI	CAYNNNNRTG	1 cut(s)	398
SaqAI	TTAA	4 cut(s)	504, 527, 576, 700
SatI	GCNGC	6 cut(s)	82, 421, 482, 485, 515, 587
Sau3AI	GATC	2 cut(s)	12, 535
Sau96I	GGNCC	4 cut(s)	418, 426, 467, 602
ScrFI	CCNGG	1 cut(s)	609
SetI	ASST	9 cut(s)	64, 192, 334, 486, 516, 534, 588, 604, 700
SfaNI	GCATC	2 cut(s)	183, 376
SfcI	CTRYAG	1 cut(s)	471
SinI	GGWCC	1 cut(s)	602
SmiMI	CAYNNNNRTG	1 cut(s)	398
SmlI	CTYRAG	1 cut(s)	341
SmoI	CTYRAG	1 cut(s)	341
SphI	GCATGC	1 cut(s)	393
Sse9I	AATT	4 cut(s)	456, 491, 521, 664
SsiI	CCGC	2 cut(s)	183, 421
SspI	AATATT	2 cut(s)	8, 133
SspMI	CTAG	1 cut(s)	318
StyD4I	CCNGG	1 cut(s)	607
TaaI	ACNGT	1 cut(s)	223
TaqI	TCGA	3 cut(s)	51, 534, 632
TasI	AATT	4 cut(s)	456, 491, 521, 664
TauI	GCSGC	1 cut(s)	423
Tru1I	TTAA	4 cut(s)	504, 527, 576, 700
Tru9I	TTAA	4 cut(s)	504, 527, 576, 700
TseFI	GTSAC	3 cut(s)	92, 217, 543
TseI	GCWGC	5 cut(s)	81, 481, 484, 514, 586
Tsp45I	GTSAC	3 cut(s)	92, 217, 543
TspDTI	ATGAA	4 cut(s)	416, 578, 650, 666
Van91I	CCANNNNNTGG	1 cut(s)	163
VpaK11BI	GGWCC	1 cut(s)	602
XapI	RAATTY	1 cut(s)	664
XceI	RCATGY	2 cut(s)	303, 393
XmiI	GTMKAC	1 cut(s)	168
XmnI	GAANNNNTTC	1 cut(s)	619
XspI	CTAG	1 cut(s)	318
Zsp2I	ATGCAT	2 cut(s)	391, 395

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