Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0006031

Physical Location & Seq

Genomic Coordinates Forward (+)

75074896 .. 75077837

Gene Structure 2942 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG474600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 876 bp

ATGCCGTTTTACTTTGCTCGTGAGGCTCCTAAGTTGTGGAGGAAAATATGCAATGAGTCGTCAACTGAAGCTTCGCTTCTTGCTGGGAATTGGAAGTTTGTTCTTGCTGGTCTCATTTGTCAGTATCTTCATGGACTGGCTGTGCACGGAGTTCATTATCTACATCGGCCAGGACCAATACTTCAGGATGCTGGCTTCTTTTTACTCCCGGAACTTGGACAAGACAAAACTTATCTGAGTGAGACTCTGTTTGCTGTTGTATTTTTTTCTTTTATCTTGTGGACATTTCACCCGTTTGTTTTTCAGAGCAAAAAAATTTATACAGTTCTGATATGGTGCAGGGTACTTGCTTATTTAGCTGCGTCTCAGTTTCTCCGGATCATCACCTTCTACGCCACTCAGCTTCCTGGTCCAAACTATCATTGCCGCGAGGGCTCAGAACTTGCCAGGCTGCCCCCTCCAAAGAGTGCACTTGCAGTGCTCTTAATCAACTTTCCCCGAGGTGTTATGTATGGCTGCGGTGATTTGATTTTTTCATCACACATGATTTTCACTTTAGTATTTGTGCGCACATTTCAGAAATATGGAACCAGGAGGTGCATCAAGCAGTTTGCTTGGTTAGTTTCTGTGATTCTAAGTGTCTTGATTATAGCATCTCGTAAGCATTACACCGTTGATGTTGTTGTTGCCTGGTACACTGTAAATTTGGTAGTTTCCTTTGTCGACCAAAAATTGCCAGAATTGCCTGATCGGTCCTTGGGTTCTACATCTCCACCGCTACTACCAACGAGTACCAAGGATAGGGATAGCAAAAACAGAGAAGAGCTTGAAAAATTCCGGAATGGAAATTCTTCTGACATCAGCACACGGGTCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005794 GO:0005802 GO:0006629 GO:0006643 GO:0006665 GO:0006807 GO:0008150 GO:0008152 GO:0008610 GO:0009058 GO:0009987 GO:0012505 GO:0016740 GO:0016757 GO:0016758 GO:0030148 GO:0031984 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044238 GO:0044249 GO:0044255 GO:0044422 GO:0044424 GO:0044431 GO:0044444 GO:0044446 GO:0044464 GO:0045140 GO:0046467 GO:0071704 GO:0098791 GO:1901564 GO:1901566 GO:1901576

KEGG Pathways

Metabolic & Signaling

ko00600 ko01100 ko04071 map00600 map01100 map04071

Pfam Domains

Protein Families

PAP2_C

Protein Analysis

291

Amino Acids

33.2

Weight (kDa)

9.44

Isoelectric Point (pI)

42.68

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PAP2_C	PF14360	172 - 241	5.5e-23	PAP2 superfamily C-terminal

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0006031)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G29525 AT2G29525 AT2G29525 AT2G29525 AT2G29525
fragaria_vesca	FvH4_3g37390 FvH4_3g37390 FvH4_3g37390 FvH4_3g37390 FvH4_3g37390 FvH4_3g37390 FvH4_3g37390
malus_domestica	MD03G1081100.v1.1
prunus_persica	Prupe.6G065700_v2.0.a1
pyrus_communis	pycom03g06470
rosa_chinensis	RchiOBHm_Chr5g0067241
rosa_laevigata	RLG00000035918
rosa_multiflora	Rmu_sc0000015.1_g000016
rosa_roxburghii	Rroxscaffold_1G00013890
rosa_rugosa	Rorug05G0383100 Rorug05G0383100 Rorug05G0383200
rosa_samantha	Rh5AG442600 Rh5BG459700 Rh5CG482100 Rh5DG474600
rosa_wichuraiana	Rw5G041360

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	569
AccI	GTMKAC	1 cut(s)	723
AccII	CGCG	1 cut(s)	429
AccIII	TCCGGA	2 cut(s)	375, 837
AciI	CCGC	3 cut(s)	427, 519, 776
AclWI	GGATC	1 cut(s)	386
AcoI	YGGCCR	1 cut(s)	167
AcsI	RAATTY	4 cut(s)	315, 703, 833, 847
AcuI	CTGAAG	2 cut(s)	87, 167
AfaI	GTAC	3 cut(s)	345, 695, 793
AfiI	CCNNNNNNNGG	2 cut(s)	215, 801
AgsI	TTSAA	1 cut(s)	830
AjnI	CCWGG	5 cut(s)	169, 406, 446, 590, 689
AluBI	AGCT	4 cut(s)	71, 359, 403, 826
AluI	AGCT	4 cut(s)	71, 359, 403, 826
Alw21I	GWGCWC	3 cut(s)	147, 472, 483
Alw26I	GTCTC	3 cut(s)	116, 236, 369
Alw44I	GTGCAC	2 cut(s)	143, 468
AlwI	GGATC	1 cut(s)	386
Ama87I	CYCGRG	1 cut(s)	498
Aor13HI	TCCGGA	2 cut(s)	375, 837
AoxI	GGCC	1 cut(s)	167
ApaLI	GTGCAC	2 cut(s)	143, 468
ApeKI	GCWGC	3 cut(s)	359, 451, 516
ApoI	RAATTY	4 cut(s)	315, 703, 833, 847
Asp700I	GAANNNNTTC	1 cut(s)	850
AspLEI	GCGC	1 cut(s)	570
AspS9I	GGNCC	3 cut(s)	173, 410, 753
AsuC2I	CCSGG	1 cut(s)	209
AsuHPI	GGTGA	3 cut(s)	281, 376, 533
AvaI	CYCGRG	1 cut(s)	498
AvaII	GGWCC	3 cut(s)	173, 410, 753
BaeGI	GKGCMC	2 cut(s)	147, 472
BanII	GRGCYC	1 cut(s)	437
BauI	CACGAG	1 cut(s)	18
Bbv12I	GWGCWC	3 cut(s)	147, 472, 483
BbvI	GCAGC	3 cut(s)	346, 438, 503
BciT130I	CCWGG	5 cut(s)	171, 408, 448, 592, 691
BcnI	CCSGG	1 cut(s)	209
BcoDI	GTCTC	3 cut(s)	116, 236, 369
BglI	GCCNNNNNGGC	1 cut(s)	432
BisI	GCNGC	4 cut(s)	360, 427, 452, 517
BlsI	GCNGC	4 cut(s)	361, 428, 453, 518
Bme1390I	CCNGG	6 cut(s)	171, 209, 408, 448, 592, 691
Bme18I	GGWCC	3 cut(s)	173, 410, 753
BmeT110I	CYCGRG	1 cut(s)	498
BmgT120I	GGNCC	3 cut(s)	173, 410, 753
BmiI	GGNNCC	2 cut(s)	27, 589
BmrFI	CCNGG	6 cut(s)	171, 209, 408, 448, 592, 691
BmsI	GCATC	3 cut(s)	178, 609, 662
BplI	GAGNNNNNCTC	2 cut(s)	229, 261
BpuMI	CCSGG	1 cut(s)	209
BsaI	GGTCTC	1 cut(s)	116
BsaJI	CCNNGG	3 cut(s)	499, 756, 795
BsaWI	WCCGGW	2 cut(s)	375, 837
Bsc4I	CCNNNNNNNGG	2 cut(s)	215, 801
Bse1I	ACTGG	1 cut(s)	141
Bse3DI	GCAATG	2 cut(s)	58, 421
BseAI	TCCGGA	2 cut(s)	375, 837
BseBI	CCWGG	5 cut(s)	171, 408, 448, 592, 691
BseDI	CCNNGG	3 cut(s)	499, 756, 795
BseGI	GGATG	1 cut(s)	193
BseLI	CCNNNNNNNGG	2 cut(s)	215, 801
BseMI	GCAATG	2 cut(s)	58, 421
BseMII	CTCAG	4 cut(s)	227, 380, 413, 450
BseNI	ACTGG	1 cut(s)	141
BseSI	GKGCMC	2 cut(s)	147, 472
BseXI	GCAGC	3 cut(s)	346, 438, 503
BseYI	CCCAGC	1 cut(s)	83
BsgI	GTGCAG	1 cut(s)	358
Bsh1236I	CGCG	1 cut(s)	429
BshFI	GGCC	1 cut(s)	169
BsiHKAI	GWGCWC	3 cut(s)	147, 472, 483
BsiHKCI	CYCGRG	1 cut(s)	498
BsiSI	CCGG	3 cut(s)	209, 376, 838
BslI	CCNNNNNNNGG	2 cut(s)	215, 801
BsmAI	GTCTC	3 cut(s)	116, 236, 369
BsmBI	CGTCTC	1 cut(s)	369
BsnI	GGCC	1 cut(s)	169
Bso31I	GGTCTC	1 cut(s)	116
BsoBI	CYCGRG	1 cut(s)	498
Bsp1286I	GDGCHC	4 cut(s)	147, 437, 472, 483
Bsp13I	TCCGGA	2 cut(s)	375, 837
Bsp143I	GATC	2 cut(s)	378, 748
BspACI	CCGC	3 cut(s)	427, 519, 776
BspANI	GGCC	1 cut(s)	169
BspCNI	CTCAG	4 cut(s)	228, 379, 412, 449
BspEI	TCCGGA	2 cut(s)	375, 837
BspFNI	CGCG	1 cut(s)	429
BspLI	GGNNCC	2 cut(s)	27, 589
BspPI	GGATC	1 cut(s)	386
BspQI	GCTCTTC	1 cut(s)	816
BspTNI	GGTCTC	1 cut(s)	116
BsrDI	GCAATG	2 cut(s)	58, 421
BsrI	ACTGG	1 cut(s)	141
BssECI	CCNNGG	3 cut(s)	499, 756, 795
BssMI	GATC	2 cut(s)	378, 748
BssSI	CACGAG	1 cut(s)	18
BssT1I	CCWWGG	2 cut(s)	756, 795
Bst2BI	CACGAG	1 cut(s)	18
Bst2UI	CCWGG	5 cut(s)	171, 408, 448, 592, 691
Bst4CI	ACNGT	3 cut(s)	325, 673, 700
Bst6I	CTCTTC	1 cut(s)	816
BstC8I	GCNNGC	1 cut(s)	193
BstDEI	CTNAG	6 cut(s)	30, 236, 366, 399, 436, 635
BstF5I	GGATG	1 cut(s)	193
BstFNI	CGCG	1 cut(s)	429
BstHHI	GCGC	1 cut(s)	570
BstKTI	GATC	2 cut(s)	381, 751
BstMAI	GTCTC	3 cut(s)	116, 236, 369
BstMBI	GATC	2 cut(s)	378, 748
BstMWI	GCNNNNNNNGC	4 cut(s)	23, 356, 432, 742
BstNI	CCWGG	5 cut(s)	171, 408, 448, 592, 691
BstSCI	CCNGG	6 cut(s)	169, 207, 406, 446, 590, 689
BstSLI	GKGCMC	2 cut(s)	147, 472
BstUI	CGCG	1 cut(s)	429
BstV1I	GCAGC	3 cut(s)	346, 438, 503
BsuRI	GGCC	1 cut(s)	169
BtsCI	GGATG	1 cut(s)	193
BtsI	GCAGTG	1 cut(s)	483
BtsIMutI	CAGTG	2 cut(s)	483, 696
Cac8I	GCNNGC	1 cut(s)	193
CfoI	GCGC	1 cut(s)	570
Cfr13I	GGNCC	3 cut(s)	173, 410, 753
CseI	GACGC	1 cut(s)	351
Csp6I	GTAC	3 cut(s)	344, 694, 792
CviAII	CATG	2 cut(s)	131, 544
CviQI	GTAC	3 cut(s)	344, 694, 792
DdeI	CTNAG	6 cut(s)	30, 236, 366, 399, 436, 635
DpnI	GATC	2 cut(s)	380, 750
DpnII	GATC	2 cut(s)	378, 748
EaeI	YGGCCR	1 cut(s)	167
Eam1104I	CTCTTC	1 cut(s)	816
EarI	CTCTTC	1 cut(s)	816
Eco130I	CCWWGG	2 cut(s)	756, 795
Eco24I	GRGCYC	1 cut(s)	437
Eco31I	GGTCTC	1 cut(s)	116
Eco47I	GGWCC	3 cut(s)	173, 410, 753
Eco57I	CTGAAG	2 cut(s)	87, 167
Eco88I	CYCGRG	1 cut(s)	498
EcoRII	CCWGG	5 cut(s)	169, 406, 446, 590, 689
EcoT14I	CCWWGG	2 cut(s)	756, 795
EcoT38I	GRGCYC	1 cut(s)	437
ErhI	CCWWGG	2 cut(s)	756, 795
Esp3I	CGTCTC	1 cut(s)	369
FaeI	CATG	2 cut(s)	134, 547
FaiI	YATR	9 cut(s)	49, 132, 321, 334, 509, 513, 545, 585, 650
FalI	AAGNNNNNCTT	2 cut(s)	60, 92
FatI	CATG	2 cut(s)	130, 543
FblI	GTMKAC	1 cut(s)	723
Fnu4HI	GCNGC	4 cut(s)	360, 427, 452, 517
FokI	GGATG	1 cut(s)	200
FriOI	GRGCYC	1 cut(s)	437
Fsp4HI	GCNGC	4 cut(s)	360, 427, 452, 517
FspAI	RTGCGCAY	1 cut(s)	569
FspI	TGCGCA	1 cut(s)	569
GlaI	GCGC	1 cut(s)	569
GluI	GCNGC	4 cut(s)	360, 427, 452, 517
GsaI	CCCAGC	1 cut(s)	87
HaeIII	GGCC	1 cut(s)	169
HapII	CCGG	3 cut(s)	209, 376, 838
HgaI	GACGC	1 cut(s)	351
HhaI	GCGC	1 cut(s)	570
Hin1II	CATG	2 cut(s)	134, 547
Hin6I	GCGC	1 cut(s)	568
HinP1I	GCGC	1 cut(s)	568
HincII	GTYRAC	2 cut(s)	63, 724
HindII	GTYRAC	2 cut(s)	63, 724
HindIII	AAGCTT	1 cut(s)	69
HinfI	GANTC	3 cut(s)	56, 244, 631
HpaII	CCGG	3 cut(s)	209, 376, 838
HphI	GGTGA	3 cut(s)	281, 376, 533
Hpy166II	GTNNAC	6 cut(s)	63, 145, 282, 470, 696, 724
Hpy188I	TCNGA	7 cut(s)	237, 306, 330, 439, 579, 856, 875
Hpy188III	TCNNGA	5 cut(s)	20, 185, 376, 643, 838
Hpy8I	GTNNAC	6 cut(s)	63, 145, 282, 470, 696, 724
HpyAV	CCTTC	1 cut(s)	397
HpyCH4III	ACNGT	3 cut(s)	325, 673, 700
HpyCH4V	TGCA	6 cut(s)	51, 145, 339, 470, 476, 600
HpyF10VI	GCNNNNNNNGC	4 cut(s)	23, 356, 432, 742
HpyF3I	CTNAG	6 cut(s)	30, 236, 366, 399, 436, 635
Hsp92II	CATG	2 cut(s)	134, 547
HspAI	GCGC	1 cut(s)	568
Kpn2I	TCCGGA	2 cut(s)	375, 837
Kzo9I	GATC	2 cut(s)	378, 748
LguI	GCTCTTC	1 cut(s)	816
LmnI	GCTCC	1 cut(s)	31
Lsp1109I	GCAGC	3 cut(s)	346, 438, 503
LweI	GCATC	3 cut(s)	178, 609, 662
MalI	GATC	2 cut(s)	380, 750
MboI	GATC	2 cut(s)	378, 748
MboII	GAAGA	3 cut(s)	119, 833, 843
MhlI	GDGCHC	4 cut(s)	147, 437, 472, 483
MluCI	AATT	7 cut(s)	88, 315, 703, 731, 740, 833, 847
MlyI	GAGTC	2 cut(s)	65, 238
MnlI	CCTC	6 cut(s)	16, 33, 424, 468, 494, 588
MroI	TCCGGA	2 cut(s)	375, 837
MroXI	GAANNNNTTC	1 cut(s)	850
MseI	TTAA	1 cut(s)	485
MspI	CCGG	3 cut(s)	209, 376, 838
MspR9I	CCNGG	6 cut(s)	171, 209, 408, 448, 592, 691
MvaI	CCWGG	5 cut(s)	171, 408, 448, 592, 691
MvnI	CGCG	1 cut(s)	429
MwoI	GCNNNNNNNGC	4 cut(s)	23, 356, 432, 742
NciI	CCSGG	1 cut(s)	209
NdeII	GATC	2 cut(s)	378, 748
NlaIII	CATG	2 cut(s)	134, 547
NlaIV	GGNNCC	2 cut(s)	27, 589
NsbI	TGCGCA	1 cut(s)	569
PciSI	GCTCTTC	1 cut(s)	816
PdmI	GAANNNNTTC	1 cut(s)	850
PfeI	GAWTC	1 cut(s)	631
PfoI	TCCNGGA	1 cut(s)	207
PkrI	GCNGC	4 cut(s)	361, 428, 453, 518
PleI	GAGTC	2 cut(s)	64, 238
PpsI	GAGTC	2 cut(s)	64, 238
Psp6I	CCWGG	5 cut(s)	169, 406, 446, 590, 689
PspFI	CCCAGC	1 cut(s)	83
PspGI	CCWGG	5 cut(s)	169, 406, 446, 590, 689
PspN4I	GGNNCC	2 cut(s)	27, 589
PspPI	GGNCC	3 cut(s)	173, 410, 753
RsaI	GTAC	3 cut(s)	345, 695, 793
RsaNI	GTAC	3 cut(s)	344, 694, 792
SalI	GTCGAC	1 cut(s)	722
SapI	GCTCTTC	1 cut(s)	816
SaqAI	TTAA	1 cut(s)	485
SatI	GCNGC	4 cut(s)	360, 427, 452, 517
Sau3AI	GATC	2 cut(s)	378, 748
Sau96I	GGNCC	3 cut(s)	173, 410, 753
SchI	GAGTC	2 cut(s)	65, 238
ScrFI	CCNGG	6 cut(s)	171, 209, 408, 448, 592, 691
SduI	GDGCHC	4 cut(s)	147, 437, 472, 483
SetI	ASST	7 cut(s)	73, 361, 389, 405, 505, 599, 828
SfaNI	GCATC	3 cut(s)	178, 609, 662
SinI	GGWCC	3 cut(s)	173, 410, 753
Sse9I	AATT	7 cut(s)	88, 315, 703, 731, 740, 833, 847
SsiI	CCGC	3 cut(s)	427, 519, 776
StyD4I	CCNGG	6 cut(s)	169, 207, 406, 446, 590, 689
StyI	CCWWGG	2 cut(s)	756, 795
TaaI	ACNGT	3 cut(s)	325, 673, 700
TaqI	TCGA	1 cut(s)	723
TaqII	GACCGA	1 cut(s)	741
TasI	AATT	7 cut(s)	88, 315, 703, 731, 740, 833, 847
TauI	GCSGC	1 cut(s)	429
TfiI	GAWTC	1 cut(s)	631
Tru1I	TTAA	1 cut(s)	485
Tru9I	TTAA	1 cut(s)	485
TscAI	CASTG	2 cut(s)	483, 703
TseI	GCWGC	3 cut(s)	359, 451, 516
TspDTI	ATGAA	3 cut(s)	119, 143, 525
TspGWI	ACGGA	1 cut(s)	162
TspRI	CASTG	2 cut(s)	483, 703
VneI	GTGCAC	2 cut(s)	143, 468
VpaK11BI	GGWCC	3 cut(s)	173, 410, 753
XapI	RAATTY	4 cut(s)	315, 703, 833, 847
XmiI	GTMKAC	1 cut(s)	723
XmnI	GAANNNNTTC	1 cut(s)	850

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