Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0015366

Physical Location & Seq

Genomic Coordinates Forward (+)

43832666 .. 43833954

Gene Structure 1289 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG231700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1026 bp

ATGCCAATTTCCACCTCAAAAGCCATGGAAAAACCTCTTAGCCAATCTGGTGAGAGATCAAGAGGGAGAAGGAAGCAAGCAGAGCCAGGTAGGTTTCTTGGGGTGAGGAGAAGGCCTTGGGGTAGATATGCAGCCGAGATTAGAGACCCAAGTACTAAAGAGAGGCATTGGCTTGGGACATTTGACACTGCTCAAGAAGCAGCTCTGGCTTATGACAGAGCTGCTTTGTCCATGAAAGGAGCTCAAGCAAGAACCAACTTCATTTACTCTGACAACTCCACTTTCCACTCTCTTCTTACACCCTTTGATGTTCAAACCCTATTGCCACAACAATCACTTGAGTTCTTCACTTCCACTACTACACAGACTCCTAGACAACAACAACCCACCAATCAGAACAGTCCACCTGGTCAGTCCAGCATGTTTTGTCAGAATGAGAGAAACCCAAATATTAGGTCCAATAATGAAAAACCCTCATTTGATAGTCTCTTCTTCTCCAATGACTTTTCTTCTGATAACTCAGGTTACTTGGGTTGCATAGTTCCTGATAACTGCTTGAGGCCTCCTTGTGATATTCCCAGAAGCAGTGACCTTACTACTACTACTCATACTTTGAATATTGATCATCAGAATTTTAGCTTTCCAAACACTGCAAACTCCTCCATTCAAACTCAACCACATTGTGATCAAAGCAGTACTGCTACTACATTTCCTCTAGATGTAATGAATGTGCCAGCTTCGATAATGGCGTCTAGCAGTAACCCCGGAGATCAGCTTTCTTGCTTTGAGGGATTCAGTCATGGATTCTGGGGGGATAACCAGCAGTACTCATCATGGGATCAGTTGAATTATAGAGAGCTTTCAACAATGGTGGATAACAACCCATTGGTGACTGAAGATGGGTGCAACATTGGAGCTTTGTATCCGATCATCGAAAATCCTAGTTCTTCTTCGTTCTCTTGCTCCCCATCAGTTCATCCTCCTATTGGTGATGTAGTAATTGACTTTGGCCATTCACTTTATTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0001067 GO:0003006 GO:0003674 GO:0003676 GO:0003677 GO:0003700 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006355 GO:0007275 GO:0008150 GO:0009653 GO:0009791 GO:0009888 GO:0009889 GO:0009891 GO:0009893 GO:0009908 GO:0010015 GO:0010022 GO:0010073 GO:0010101 GO:0010102 GO:0010432 GO:0010451 GO:0010468 GO:0010556 GO:0010557 GO:0010582 GO:0010604 GO:0010628 GO:0019219 GO:0019222 GO:0022414 GO:0022603 GO:0022622 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0032501 GO:0032502 GO:0035266 GO:0040007 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043565 GO:0044212 GO:0044424 GO:0044464 GO:0045893 GO:0045935 GO:0048364 GO:0048367 GO:0048507 GO:0048518 GO:0048522 GO:0048527 GO:0048528 GO:0048589 GO:0048608 GO:0048731 GO:0048827 GO:0048831 GO:0048856 GO:0050789 GO:0050793 GO:0050794 GO:0051171 GO:0051173 GO:0051239 GO:0051252 GO:0051254 GO:0060255 GO:0060688 GO:0061458 GO:0065007 GO:0080090 GO:0090567 GO:0090696 GO:0090697 GO:0090698 GO:0097159 GO:0099402 GO:0140110 GO:1900618 GO:1901363 GO:1902680 GO:1903506 GO:1903508 GO:1905392 GO:1905428 GO:2000026 GO:2000032 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

AP2

Protein Analysis

341

Amino Acids

37.9

Weight (kDa)

5.34

Isoelectric Point (pI)

56.74

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
AP2	PF00847	33 - 80	7.6e-13	AP2 domain

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: OG0015366)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G18560
fragaria_vesca	FvH4_4g17630
malus_domestica	MD13G1171200.v1.1 MD16G1172800.v1.1
prunus_persica	Prupe.1G139600_v2.0.a1
pyrus_communis	pycom16g14490
rosa_chinensis	RchiOBHm_Chr4g0421551
rosa_laevigata	RLG00000007668
rosa_multiflora	Rmu_sc0010734.1_g000007
rosa_roxburghii	Rroxscaffold_5G00363800
rosa_rugosa	Rorug04G0172700
rosa_samantha	Rh4AG233100 Rh4BG235800 Rh4CG247400 Rh4DG231700
rosa_wichuraiana	Rw4G020100

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AclWI	GGATC	1 cut(s)	846
AcoI	YGGCCR	1 cut(s)	1009
AcsI	RAATTY	1 cut(s)	631
AcuI	CTGAAG	1 cut(s)	915
AcyI	GRCGYC	1 cut(s)	749
AdeI	CACNNNGTG	1 cut(s)	683
AfaI	GTAC	3 cut(s)	154, 697, 827
AfiI	CCNNNNNNNGG	1 cut(s)	986
AgsI	TTSAA	5 cut(s)	314, 616, 668, 847, 864
AjnI	CCWGG	2 cut(s)	85, 406
AluBI	AGCT	8 cut(s)	203, 221, 242, 639, 737, 775, 859, 917
AluI	AGCT	8 cut(s)	203, 221, 242, 639, 737, 775, 859, 917
Alw21I	GWGCWC	1 cut(s)	244
Alw26I	GTCTC	2 cut(s)	138, 491
AlwI	GGATC	1 cut(s)	846
AoxI	GGCC	3 cut(s)	113, 560, 1009
ApeKI	GCWGC	3 cut(s)	131, 200, 221
ApoI	RAATTY	1 cut(s)	631
ArsI	GACNNNNNNTTYG	2 cut(s)	440, 472
AspS9I	GGNCC	1 cut(s)	456
AsuC2I	CCSGG	1 cut(s)	765
AsuHPI	GGTGA	4 cut(s)	62, 115, 901, 1001
AvaII	GGWCC	1 cut(s)	456
BalI	TGGCCA	1 cut(s)	1011
BanII	GRGCYC	1 cut(s)	244
Bbv12I	GWGCWC	1 cut(s)	244
BbvI	GCAGC	3 cut(s)	143, 208, 212
BccI	CCATC	2 cut(s)	893, 976
BciT130I	CCWGG	2 cut(s)	87, 408
BciVI	GTATCC	1 cut(s)	933
BclI	TGATCA	2 cut(s)	622, 685
BcnI	CCSGG	1 cut(s)	765
BcoDI	GTCTC	2 cut(s)	138, 491
BfaI	CTAG	4 cut(s)	372, 716, 753, 942
BfuI	GTATCC	1 cut(s)	933
BisI	GCNGC	3 cut(s)	132, 201, 222
BlsI	GCNGC	3 cut(s)	133, 202, 223
BmcAI	AGTACT	3 cut(s)	154, 697, 827
Bme1390I	CCNGG	3 cut(s)	87, 408, 765
Bme18I	GGWCC	1 cut(s)	456
BmgT120I	GGNCC	1 cut(s)	456
BmrFI	CCNGG	3 cut(s)	87, 408, 765
BpuEI	CTTGAG	4 cut(s)	177, 228, 359, 577
BpuMI	CCSGG	1 cut(s)	765
BsaHI	GRCGYC	1 cut(s)	749
BsaI	GGTCTC	1 cut(s)	138
BsaJI	CCNNGG	3 cut(s)	24, 116, 763
BsaXI	ACNNNNNCTCC	2 cut(s)	352, 382
Bsc4I	CCNNNNNNNGG	1 cut(s)	986
BseBI	CCWGG	2 cut(s)	87, 408
BseDI	CCNNGG	3 cut(s)	24, 116, 763
BseGI	GGATG	1 cut(s)	976
BseLI	CCNNNNNNNGG	1 cut(s)	986
BseMII	CTCAG	1 cut(s)	534
BseRI	GAGGAG	2 cut(s)	121, 649
BseXI	GCAGC	3 cut(s)	143, 208, 212
BshFI	GGCC	3 cut(s)	115, 562, 1011
BsiHKAI	GWGCWC	1 cut(s)	244
BsiSI	CCGG	1 cut(s)	765
BslFI	GGGAC	1 cut(s)	190
BslI	CCNNNNNNNGG	1 cut(s)	986
BsmAI	GTCTC	2 cut(s)	138, 491
BsmFI	GGGAC	1 cut(s)	190
BsnI	GGCC	3 cut(s)	115, 562, 1011
Bso31I	GGTCTC	1 cut(s)	138
Bsp1286I	GDGCHC	1 cut(s)	244
Bsp143I	GATC	6 cut(s)	56, 622, 685, 769, 838, 927
Bsp19I	CCATGG	1 cut(s)	24
BspANI	GGCC	3 cut(s)	115, 562, 1011
BspCNI	CTCAG	1 cut(s)	533
BspPI	GGATC	1 cut(s)	846
BspTNI	GGTCTC	1 cut(s)	138
BssECI	CCNNGG	3 cut(s)	24, 116, 763
BssMI	GATC	6 cut(s)	56, 622, 685, 769, 838, 927
BssNI	GRCGYC	1 cut(s)	749
BssT1I	CCWWGG	2 cut(s)	24, 116
Bst2UI	CCWGG	2 cut(s)	87, 408
Bst4CI	ACNGT	1 cut(s)	401
Bst6I	CTCTTC	2 cut(s)	297, 494
BstACI	GRCGYC	1 cut(s)	749
BstC8I	GCNNGC	2 cut(s)	78, 735
BstDEI	CTNAG	2 cut(s)	38, 520
BstDSI	CCRYGG	1 cut(s)	24
BstF5I	GGATG	1 cut(s)	976
BstKTI	GATC	6 cut(s)	59, 625, 688, 772, 841, 930
BstMAI	GTCTC	2 cut(s)	138, 491
BstMBI	GATC	6 cut(s)	56, 622, 685, 769, 838, 927
BstMWI	GCNNNNNNNGC	3 cut(s)	82, 197, 206
BstNI	CCWGG	2 cut(s)	87, 408
BstNSI	RCATGY	1 cut(s)	424
BstSCI	CCNGG	3 cut(s)	85, 406, 763
BstV1I	GCAGC	3 cut(s)	143, 208, 212
BsuI	GTATCC	1 cut(s)	933
BsuRI	GGCC	3 cut(s)	115, 562, 1011
BtgI	CCRYGG	1 cut(s)	24
BtsCI	GGATG	1 cut(s)	976
BtsI	GCAGTG	3 cut(s)	186, 592, 648
BtsIMutI	CAGTG	3 cut(s)	186, 592, 648
Cac8I	GCNNGC	2 cut(s)	78, 735
Cfr13I	GGNCC	1 cut(s)	456
CseI	GACGC	1 cut(s)	738
CsiI	ACCWGGT	1 cut(s)	406
Csp6I	GTAC	3 cut(s)	153, 696, 826
CspCI	CAANNNNNGTGG	2 cut(s)	852, 887
CviAII	CATG	5 cut(s)	25, 232, 421, 800, 834
CviQI	GTAC	3 cut(s)	153, 696, 826
DdeI	CTNAG	2 cut(s)	38, 520
DpnI	GATC	6 cut(s)	58, 624, 687, 771, 840, 929
DpnII	GATC	6 cut(s)	56, 622, 685, 769, 838, 927
DraIII	CACNNNGTG	1 cut(s)	683
EaeI	YGGCCR	1 cut(s)	1009
Eam1104I	CTCTTC	2 cut(s)	297, 494
EarI	CTCTTC	2 cut(s)	297, 494
Ecl136II	GAGCTC	1 cut(s)	242
Eco130I	CCWWGG	2 cut(s)	24, 116
Eco147I	AGGCCT	2 cut(s)	115, 562
Eco24I	GRGCYC	1 cut(s)	244
Eco31I	GGTCTC	1 cut(s)	138
Eco47I	GGWCC	1 cut(s)	456
Eco53kI	GAGCTC	1 cut(s)	242
Eco57I	CTGAAG	1 cut(s)	915
EcoICRI	GAGCTC	1 cut(s)	242
EcoRII	CCWGG	2 cut(s)	85, 406
EcoT14I	CCWWGG	2 cut(s)	24, 116
EcoT38I	GRGCYC	1 cut(s)	244
ErhI	CCWWGG	2 cut(s)	24, 116
FaeI	CATG	5 cut(s)	28, 235, 424, 803, 837
FaqI	GGGAC	1 cut(s)	190
FatI	CATG	5 cut(s)	24, 231, 420, 799, 833
FbaI	TGATCA	2 cut(s)	622, 685
Fnu4HI	GCNGC	3 cut(s)	132, 201, 222
FokI	GGATG	1 cut(s)	963
FriOI	GRGCYC	1 cut(s)	244
Fsp4HI	GCNGC	3 cut(s)	132, 201, 222
FspBI	CTAG	4 cut(s)	372, 716, 753, 942
GluI	GCNGC	3 cut(s)	132, 201, 222
HaeIII	GGCC	3 cut(s)	115, 562, 1011
HapII	CCGG	1 cut(s)	765
HgaI	GACGC	1 cut(s)	738
Hin1I	GRCGYC	1 cut(s)	749
Hin1II	CATG	5 cut(s)	28, 235, 424, 803, 837
HinfI	GANTC	3 cut(s)	367, 792, 804
HpaII	CCGG	1 cut(s)	765
HphI	GGTGA	4 cut(s)	62, 115, 901, 1001
Hpy166II	GTNNAC	1 cut(s)	404
Hpy188I	TCNGA	6 cut(s)	271, 396, 432, 514, 630, 927
Hpy188III	TCNNGA	4 cut(s)	60, 194, 545, 716
Hpy8I	GTNNAC	1 cut(s)	404
HpyAV	CCTTC	2 cut(s)	63, 105
HpyCH4III	ACNGT	1 cut(s)	401
HpyCH4V	TGCA	4 cut(s)	131, 537, 653, 906
HpyF10VI	GCNNNNNNNGC	3 cut(s)	82, 197, 206
HpyF3I	CTNAG	2 cut(s)	38, 520
Hsp92I	GRCGYC	1 cut(s)	749
Hsp92II	CATG	5 cut(s)	28, 235, 424, 803, 837
Ksp22I	TGATCA	2 cut(s)	622, 685
Kzo9I	GATC	6 cut(s)	56, 622, 685, 769, 838, 927
LmnI	GCTCC	3 cut(s)	239, 914, 968
Lsp1109I	GCAGC	3 cut(s)	143, 208, 212
MabI	ACCWGGT	1 cut(s)	406
MaeI	CTAG	4 cut(s)	372, 716, 753, 942
MaeIII	GTNAC	4 cut(s)	524, 587, 758, 889
MalI	GATC	6 cut(s)	58, 624, 687, 771, 840, 929
MboI	GATC	6 cut(s)	56, 622, 685, 769, 838, 927
MboII	GAAGA	8 cut(s)	284, 337, 481, 484, 501, 908, 939, 942
MhlI	GDGCHC	1 cut(s)	244
MlsI	TGGCCA	1 cut(s)	1011
MluCI	AATT	4 cut(s)	6, 631, 847, 999
MluNI	TGGCCA	1 cut(s)	1011
MlyI	GAGTC	1 cut(s)	361
Mox20I	TGGCCA	1 cut(s)	1011
MscI	TGGCCA	1 cut(s)	1011
Msp20I	TGGCCA	1 cut(s)	1011
MspI	CCGG	1 cut(s)	765
MspR9I	CCNGG	3 cut(s)	87, 408, 765
MvaI	CCWGG	2 cut(s)	87, 408
MwoI	GCNNNNNNNGC	3 cut(s)	82, 197, 206
NciI	CCSGG	1 cut(s)	765
NcoI	CCATGG	1 cut(s)	24
NdeII	GATC	6 cut(s)	56, 622, 685, 769, 838, 927
NlaIII	CATG	5 cut(s)	28, 235, 424, 803, 837
NmeAIII	GCCGAG	1 cut(s)	160
NmuCI	GTSAC	2 cut(s)	587, 889
NspI	RCATGY	1 cut(s)	424
PceI	AGGCCT	2 cut(s)	115, 562
PcsI	WCGNNNNNNNCGW	1 cut(s)	746
PfeI	GAWTC	2 cut(s)	792, 804
PkrI	GCNGC	3 cut(s)	133, 202, 223
PleI	GAGTC	1 cut(s)	361
PpsI	GAGTC	1 cut(s)	361
Psp124BI	GAGCTC	1 cut(s)	244
Psp6I	CCWGG	2 cut(s)	85, 406
PspGI	CCWGG	2 cut(s)	85, 406
PspPI	GGNCC	1 cut(s)	456
RsaI	GTAC	3 cut(s)	154, 697, 827
RsaNI	GTAC	3 cut(s)	153, 696, 826
SacI	GAGCTC	1 cut(s)	244
SatI	GCNGC	3 cut(s)	132, 201, 222
Sau3AI	GATC	6 cut(s)	56, 622, 685, 769, 838, 927
Sau96I	GGNCC	1 cut(s)	456
ScaI	AGTACT	3 cut(s)	154, 697, 827
SchI	GAGTC	1 cut(s)	361
ScrFI	CCNGG	3 cut(s)	87, 408, 765
SduI	GDGCHC	1 cut(s)	244
SexAI	ACCWGGT	1 cut(s)	406
SinI	GGWCC	1 cut(s)	456
SmlI	CTYRAG	4 cut(s)	192, 243, 338, 556
SmoI	CTYRAG	4 cut(s)	192, 243, 338, 556
Sse9I	AATT	4 cut(s)	6, 631, 847, 999
SseBI	AGGCCT	2 cut(s)	115, 562
SspI	AATATT	2 cut(s)	451, 619
SspMI	CTAG	4 cut(s)	372, 716, 753, 942
SstI	GAGCTC	1 cut(s)	244
StuI	AGGCCT	2 cut(s)	115, 562
StyD4I	CCNGG	3 cut(s)	85, 406, 763
StyI	CCWWGG	2 cut(s)	24, 116
TaaI	ACNGT	1 cut(s)	401
TaqI	TCGA	2 cut(s)	740, 933
TasI	AATT	4 cut(s)	6, 631, 847, 999
TatI	WGTACW	3 cut(s)	152, 695, 825
TfiI	GAWTC	2 cut(s)	792, 804
TscAI	CASTG	3 cut(s)	193, 592, 655
TseFI	GTSAC	2 cut(s)	587, 889
TseI	GCWGC	3 cut(s)	131, 200, 221
Tsp45I	GTSAC	2 cut(s)	587, 889
TspDTI	ATGAA	5 cut(s)	248, 250, 480, 740, 965
TspRI	CASTG	3 cut(s)	193, 592, 655
VpaK11BI	GGWCC	1 cut(s)	456
XapI	RAATTY	1 cut(s)	631
XbaI	TCTAGA	1 cut(s)	715
XceI	RCATGY	1 cut(s)	424
XspI	CTAG	4 cut(s)	372, 716, 753, 942
ZrmI	AGTACT	3 cut(s)	154, 697, 827

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