Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3C

Orthogroup ID

OG0001257

Physical Location & Seq

Genomic Coordinates Reverse (-)

28002461 .. 28005436

Gene Structure 2976 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3CG279200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 768 bp

ATGGCATCAAAGTGTGTTCGTTTTATTCAAGATCAGAATCTTGATGTTTCTGGGCCTCCTTGTCTCACTAGGATTCCTTTTGTTGGCTGGAGTCTTCATAGTCCAACTAGGACTCGGCATTGTTGGTCATTTCTCAATTTTCACGCTGATGGAGCTTCAGTTGCGGGAAAGGGTGATGCATTCAAATCAACCAAGAAAGGGGGACTTGGTGGAAGGAAACCCCTAGGAGATCTATCAAATAGGGGAAAGCCTGATTTTACCAAGGCATCAAAAAAGCCTGCTCTCACCAATGTTCTTGAAATCATTGCTGATGCAAGCAATAAGAAAGGCCTTTCTATAGCCTCGGATAAAGTGCAGACTCATGGCAGCCATGAGGAACTATCTGATGTGTCTAACACAGTCAGACCACCCCTTCAGAAGACTTCAAGTGTTACAGCAGATGAATCCTCTTGTGATTTTGAGGAGGAAGGTTTCCTGCATGGCCGTAAACAGTGCATCAAGGAAACGAGAGAGGCTAACCAGAGGGATCAAACGGATATATTTGGGATGATGCATACAAATCCATCCAAGATTCTTTCATCTCCACCAAAAGATTCTCAGTTTACCAAAGATGAGGAGGACAGTCTGACCATGTACTTGGAAGAGATACCTGAGGACTCCTCCTTCTCCTCACCTCCTTGGAATTCTCCACCTCTATCACCAGTACCCTGTACCGATTCCCCTTGTATTTCGGAGGAGTGTGATCTTCAGGTGACGGAAACACCATAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009987 GO:0016070 GO:0016787 GO:0016788 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044424 GO:0044464 GO:0046483 GO:0071704 GO:0090304 GO:0090305 GO:0097159 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DYW_deaminase PPR PPR_2

Protein Analysis

255

Amino Acids

27.9

Weight (kDa)

5.54

Isoelectric Point (pI)

55.38

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

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Align Labels (Cladogram)

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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: OG0001257)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G14190 AT3G14190 AT5G12360 AT5G12360
fragaria_vesca	FvH4_2g09870 FvH4_5g32440 FvH4_6g24000 FvH4_6g24000 FvH4_6g24000 FvH4_6g37300 FvH4_6g37300
malus_domestica	MD07G1041300.v1.1 MD12G1079700.v1.1 MD14G1075900.v1.1
prunus_persica	Prupe.7G043900_v2.0.a1 Prupe.7G043900_v2.0.a1 Prupe.7G058200_v2.0.a1
pyrus_communis	pycom07g02870
rosa_chinensis	RchiOBHm_Chr3g0482351 RchiOBHm_Chr3g0482721 RchiOBHm_Chr3g0482771 RchiOBHm_Chr3g0486201
rosa_laevigata	RLG00000023330
rosa_multiflora	Rmu_co8450015.1_g000001 Rmu_sc0006601.1_g000001 Rmu_sc0008293.1_g000003 Rmu_sc0011602.1_g000006 Rmu_sc0019256.1_g000003 Rmu_ssc0000175.1_g000036
rosa_roxburghii	Rroxscaffold_6G00394010 Rroxscaffold_6G00398970 Rroxscaffold_6G00399400
rosa_rugosa	Rorug03G0195900 Rorug03G0195900 Rorug03G0198600 Rorug03G0198700 Rorug03G0199200 Rorug03G0199200
rosa_samantha	Rh3AG247700 Rh3AG249500 Rh3AG249800 Rh3AG274000 Rh3BG282200 Rh3BG285600 Rh3BG285900 Rh3CG279200 Rh3CG279300 Rh3CG283200 Rh3CG283800 Rh3DG275000 Rh3DG279000 Rh3DG279500
rosa_wichuraiana	Rw3G022210 Rw3G022550 Rw3G022580

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	164
AclWI	GGATC	1 cut(s)	534
AcoI	YGGCCR	1 cut(s)	481
AcsI	RAATTY	1 cut(s)	682
AcuI	CTGAAG	3 cut(s)	141, 398, 731
AfaI	GTAC	3 cut(s)	635, 705, 712
AfiI	CCNNNNNNNGG	2 cut(s)	83, 198
AgsI	TTSAA	4 cut(s)	29, 184, 299, 426
AluBI	AGCT	1 cut(s)	155
AluI	AGCT	1 cut(s)	155
Alw26I	GTCTC	1 cut(s)	68
AlwI	GGATC	1 cut(s)	534
AoxI	GGCC	3 cut(s)	53, 328, 481
ApeKI	GCWGC	1 cut(s)	366
ApoI	RAATTY	1 cut(s)	682
AspA2I	CCTAGG	1 cut(s)	223
AspS9I	GGNCC	1 cut(s)	53
AsuHPI	GGTGA	5 cut(s)	185, 277, 663, 690, 763
AvrII	CCTAGG	1 cut(s)	223
AxyI	CCTNAGG	1 cut(s)	651
BbsI	GAAGAC	2 cut(s)	86, 425
BbvI	GCAGC	1 cut(s)	378
BccI	CCATC	2 cut(s)	143, 571
BceAI	ACGGC	1 cut(s)	468
BcoDI	GTCTC	1 cut(s)	68
BfaI	CTAG	3 cut(s)	69, 108, 224
BfmI	CTRYAG	1 cut(s)	336
BglII	AGATCT	1 cut(s)	229
BisI	GCNGC	1 cut(s)	367
BlnI	CCTAGG	1 cut(s)	223
BlsI	GCNGC	1 cut(s)	368
BmgT120I	GGNCC	1 cut(s)	53
BmsI	GCATC	6 cut(s)	14, 166, 275, 301, 504, 540
BpiI	GAAGAC	2 cut(s)	86, 425
BplI	GAGNNNNNCTC	2 cut(s)	644, 676
BpmI	CTGGAG	1 cut(s)	109
BsaBI	GATNNNNATC	1 cut(s)	36
BsaJI	CCNNGG	4 cut(s)	223, 261, 342, 677
BsaXI	ACNNNNNCTCC	2 cut(s)	144, 174
Bsc4I	CCNNNNNNNGG	2 cut(s)	83, 198
Bse1I	ACTGG	1 cut(s)	701
Bse21I	CCTNAGG	1 cut(s)	651
Bse3DI	GCAATG	1 cut(s)	303
Bse8I	GATNNNNATC	1 cut(s)	36
BseDI	CCNNGG	4 cut(s)	223, 261, 342, 677
BseGI	GGATG	2 cut(s)	552, 563
BseJI	GATNNNNATC	1 cut(s)	36
BseLI	CCNNNNNNNGG	2 cut(s)	83, 198
BseMI	GCAATG	1 cut(s)	303
BseMII	CTCAG	2 cut(s)	611, 642
BseNI	ACTGG	1 cut(s)	701
BseRI	GAGGAG	5 cut(s)	476, 629, 649, 658, 749
BseXI	GCAGC	1 cut(s)	378
BsgI	GTGCAG	1 cut(s)	374
BshFI	GGCC	3 cut(s)	55, 330, 483
BslFI	GGGAC	1 cut(s)	216
BslI	CCNNNNNNNGG	2 cut(s)	83, 198
BsmAI	GTCTC	1 cut(s)	68
BsmFI	GGGAC	1 cut(s)	216
BsmI	GAATGC	1 cut(s)	179
BsnI	GGCC	3 cut(s)	55, 330, 483
Bsp143I	GATC	4 cut(s)	31, 229, 526, 742
BspACI	CCGC	1 cut(s)	164
BspANI	GGCC	3 cut(s)	55, 330, 483
BspCNI	CTCAG	2 cut(s)	610, 643
BspPI	GGATC	1 cut(s)	534
BsrDI	GCAATG	1 cut(s)	303
BsrI	ACTGG	1 cut(s)	701
BssECI	CCNNGG	4 cut(s)	223, 261, 342, 677
BssMI	GATC	4 cut(s)	31, 229, 526, 742
BssT1I	CCWWGG	3 cut(s)	223, 261, 677
Bst4CI	ACNGT	3 cut(s)	400, 492, 623
Bst6I	CTCTTC	1 cut(s)	636
BstC8I	GCNNGC	2 cut(s)	279, 316
BstDEI	CTNAG	2 cut(s)	597, 651
BstF5I	GGATG	2 cut(s)	552, 563
BstKTI	GATC	4 cut(s)	34, 232, 529, 745
BstMAI	GTCTC	1 cut(s)	68
BstMBI	GATC	4 cut(s)	31, 229, 526, 742
BstMWI	GCNNNNNNNGC	2 cut(s)	152, 161
BstSFI	CTRYAG	1 cut(s)	336
BstV1I	GCAGC	1 cut(s)	378
BstV2I	GAAGAC	2 cut(s)	86, 425
BstX2I	RGATCY	1 cut(s)	229
BstXI	CCANNNNNNTGG	1 cut(s)	637
BstYI	RGATCY	1 cut(s)	229
Bsu36I	CCTNAGG	1 cut(s)	651
BsuRI	GGCC	3 cut(s)	55, 330, 483
BtsCI	GGATG	2 cut(s)	552, 563
BtsIMutI	CAGTG	1 cut(s)	497
Cac8I	GCNNGC	2 cut(s)	279, 316
Cfr13I	GGNCC	1 cut(s)	53
Csp6I	GTAC	3 cut(s)	634, 704, 711
CviAII	CATG	4 cut(s)	362, 371, 479, 631
CviQI	GTAC	3 cut(s)	634, 704, 711
DdeI	CTNAG	2 cut(s)	597, 651
DpnI	GATC	4 cut(s)	33, 231, 528, 744
DpnII	GATC	4 cut(s)	31, 229, 526, 742
EaeI	YGGCCR	1 cut(s)	481
Eam1104I	CTCTTC	1 cut(s)	636
EarI	CTCTTC	1 cut(s)	636
Eco130I	CCWWGG	3 cut(s)	223, 261, 677
Eco147I	AGGCCT	1 cut(s)	330
Eco57I	CTGAAG	3 cut(s)	141, 398, 731
Eco81I	CCTNAGG	1 cut(s)	651
EcoRI	GAATTC	1 cut(s)	682
EcoT14I	CCWWGG	3 cut(s)	223, 261, 677
EcoT22I	ATGCAT	2 cut(s)	181, 555
ErhI	CCWWGG	3 cut(s)	223, 261, 677
FaeI	CATG	4 cut(s)	365, 374, 482, 634
FaiI	YATR	9 cut(s)	99, 338, 363, 372, 480, 539, 555, 632, 766
FalI	AAGNNNNNCTT	2 cut(s)	189, 221
FaqI	GGGAC	1 cut(s)	216
FatI	CATG	4 cut(s)	361, 370, 478, 630
FauI	CCCGC	1 cut(s)	157
Fnu4HI	GCNGC	1 cut(s)	367
FokI	GGATG	2 cut(s)	550, 559
Fsp4HI	GCNGC	1 cut(s)	367
FspBI	CTAG	3 cut(s)	69, 108, 224
GluI	GCNGC	1 cut(s)	367
GsuI	CTGGAG	1 cut(s)	109
HaeIII	GGCC	3 cut(s)	55, 330, 483
Hin1II	CATG	4 cut(s)	365, 374, 482, 634
HphI	GGTGA	5 cut(s)	185, 277, 663, 690, 763
Hpy166II	GTNNAC	2 cut(s)	488, 603
Hpy188I	TCNGA	7 cut(s)	36, 346, 385, 404, 417, 627, 733
Hpy188III	TCNNGA	3 cut(s)	29, 41, 296
Hpy8I	GTNNAC	2 cut(s)	488, 603
HpyAV	CCTTC	4 cut(s)	207, 422, 461, 673
HpyCH4III	ACNGT	3 cut(s)	400, 492, 623
HpyCH4V	TGCA	6 cut(s)	179, 314, 355, 478, 495, 553
HpyF10VI	GCNNNNNNNGC	2 cut(s)	152, 161
HpyF3I	CTNAG	2 cut(s)	597, 651
Hsp92II	CATG	4 cut(s)	365, 374, 482, 634
Kzo9I	GATC	4 cut(s)	31, 229, 526, 742
LmnI	GCTCC	1 cut(s)	152
Lsp1109I	GCAGC	1 cut(s)	378
LweI	GCATC	6 cut(s)	14, 166, 275, 301, 504, 540
MaeI	CTAG	3 cut(s)	69, 108, 224
MaeIII	GTNAC	2 cut(s)	430, 751
MalI	GATC	4 cut(s)	33, 231, 528, 744
MboI	GATC	4 cut(s)	31, 229, 526, 742
MboII	GAAGA	4 cut(s)	86, 430, 653, 737
MflI	RGATCY	1 cut(s)	229
MluCI	AATT	2 cut(s)	136, 682
MlyI	GAGTC	4 cut(s)	100, 106, 352, 650
MmeI	TCCRAC	1 cut(s)	128
Mph1103I	ATGCAT	2 cut(s)	181, 555
MslI	CAYNNNNRTG	2 cut(s)	10, 147
Mva1269I	GAATGC	1 cut(s)	179
MwoI	GCNNNNNNNGC	2 cut(s)	152, 161
NdeII	GATC	4 cut(s)	31, 229, 526, 742
NlaIII	CATG	4 cut(s)	365, 374, 482, 634
NmeAIII	GCCGAG	1 cut(s)	94
NmuCI	GTSAC	1 cut(s)	751
NsiI	ATGCAT	2 cut(s)	181, 555
PceI	AGGCCT	1 cut(s)	330
PctI	GAATGC	1 cut(s)	179
PfeI	GAWTC	6 cut(s)	37, 73, 443, 571, 593, 716
PkrI	GCNGC	1 cut(s)	368
PleI	GAGTC	4 cut(s)	99, 106, 352, 650
PpsI	GAGTC	4 cut(s)	99, 106, 352, 650
PspPI	GGNCC	1 cut(s)	53
PsuI	RGATCY	1 cut(s)	229
RsaI	GTAC	3 cut(s)	635, 705, 712
RsaNI	GTAC	3 cut(s)	634, 704, 711
RseI	CAYNNNNRTG	2 cut(s)	10, 147
SatI	GCNGC	1 cut(s)	367
Sau3AI	GATC	4 cut(s)	31, 229, 526, 742
Sau96I	GGNCC	1 cut(s)	53
SchI	GAGTC	4 cut(s)	100, 106, 352, 650
SetI	ASST	6 cut(s)	157, 472, 652, 676, 694, 753
SfaNI	GCATC	6 cut(s)	14, 166, 275, 301, 504, 540
SfcI	CTRYAG	1 cut(s)	336
SmiMI	CAYNNNNRTG	2 cut(s)	10, 147
Sse9I	AATT	2 cut(s)	136, 682
SseBI	AGGCCT	1 cut(s)	330
SsiI	CCGC	1 cut(s)	164
SspMI	CTAG	3 cut(s)	69, 108, 224
StuI	AGGCCT	1 cut(s)	330
StyI	CCWWGG	3 cut(s)	223, 261, 677
TaaI	ACNGT	3 cut(s)	400, 492, 623
TasI	AATT	2 cut(s)	136, 682
TatI	WGTACW	1 cut(s)	633
TfiI	GAWTC	6 cut(s)	37, 73, 443, 571, 593, 716
TscAI	CASTG	1 cut(s)	497
TseFI	GTSAC	1 cut(s)	751
TseI	GCWGC	1 cut(s)	366
Tsp45I	GTSAC	1 cut(s)	751
TspDTI	ATGAA	3 cut(s)	86, 456, 567
TspGWI	ACGGA	1 cut(s)	548
TspRI	CASTG	1 cut(s)	497
XapI	RAATTY	1 cut(s)	682
XmaJI	CCTAGG	1 cut(s)	223
XspI	CTAG	3 cut(s)	69, 108, 224
Zsp2I	ATGCAT	2 cut(s)	181, 555

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