Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4A

Orthogroup ID

OG0015366

Physical Location & Seq

Genomic Coordinates Forward (+)

53694657 .. 53695950

Gene Structure 1294 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4AG233100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1029 bp

ATGCCAATTTCCACCTCAAAAGCCATGGAAAAACCTCTTAGCCAATCTGGTGAGAGATCAAGAGGGAGAAGGAAGCAAGCAGAGCCAGGTAGGTTTCTTGGGGTGAGGAGAAGGCCTTGGGGTAGATATGCAGCCGAGATTAGAGACCCAAGTACTAAAGAGAGGCATTGGCTTGGGACATTTGACACTGCTCAAGAAGCAGCTCTGGCTTATGACAGAGCTGCTTTGTCCATGAAAGGAGCTCAAGCAAGAACCAACTTCATTTACTCTGACAACTCCACTTTCCACTCTCTTCTTACACCCTTTGATGTTCAAACCCTATTGCCACAACAATCACTTGAGTTCTTCACTTCCACTACTACACAGACTCCTAGACAACAACAACCCACTAATCAGAACAGTCCACCTGGTCAGTCCAGCATGTTTTATCAGAATGAGAGAAACCCAAATATTAGGTCCAATAATGAAAAACCCTCATTTGATAGTCTCTTCTTCTCCAATGACTTTTCTTCTGATAACTCAGGTTACTTGGGTTGCATAGTTCCTGATAACTGCTTGAGGCCTCCTTGTGATATTCCCAGAAGCAGTGACCTTACTACTACTACTACTCATGCTTTGAATATTGATCATCAGAATTTTAGCTTTCCAAACACTGCAAACTCCTCCATTCAAACTCAACCACATTGTGATCAAAGCAGTACTGCTACTACATTTCCTCTAGATGTAATGAATGTGCCAGCTTCGATAATAGCGTCTAGCAGTAACCCCGGAGATCAGCTTTCTTGCTTTGAGGGATTCAGTCATGGATTCTGGGGGGATAACCAGCAGTACTCATCATGGGATCAGTTGAATTATAGAGAGCTTTCAACAATGATGGATAACAACCCATTGATGACTGAAGATGGGTGCAACATTGGAGCTTTGTATCCGATCATCGAAAATCCTAGTTCTTCTTCGTTCTCTTGCTCCCCATCAGTTCATCCTCCTATTGGTGATGTAGTAATTGACTTTGGCCATTCACTTTATTAG

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

342

Amino Acids

38.07

Weight (kDa)

5.34

Isoelectric Point (pI)

58.16

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

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Align Labels (Cladogram)

Image

Tree File

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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)	849
AcoI	YGGCCR	1 cut(s)	1012
AcsI	RAATTY	1 cut(s)	634
AcuI	CTGAAG	1 cut(s)	918
AdeI	CACNNNGTG	1 cut(s)	686
AfaI	GTAC	3 cut(s)	154, 700, 830
AfiI	CCNNNNNNNGG	1 cut(s)	989
AgsI	TTSAA	5 cut(s)	314, 619, 671, 850, 867
AjnI	CCWGG	2 cut(s)	85, 406
AluBI	AGCT	8 cut(s)	203, 221, 242, 642, 740, 778, 862, 920
AluI	AGCT	8 cut(s)	203, 221, 242, 642, 740, 778, 862, 920
Alw21I	GWGCWC	1 cut(s)	244
Alw26I	GTCTC	2 cut(s)	138, 491
AlwI	GGATC	1 cut(s)	849
AoxI	GGCC	3 cut(s)	113, 560, 1012
ApeKI	GCWGC	3 cut(s)	131, 200, 221
ApoI	RAATTY	1 cut(s)	634
ArsI	GACNNNNNNTTYG	2 cut(s)	440, 472
AspS9I	GGNCC	1 cut(s)	456
AsuC2I	CCSGG	1 cut(s)	768
AsuHPI	GGTGA	3 cut(s)	62, 115, 1004
AvaII	GGWCC	1 cut(s)	456
BalI	TGGCCA	1 cut(s)	1014
BanII	GRGCYC	1 cut(s)	244
Bbv12I	GWGCWC	1 cut(s)	244
BbvI	GCAGC	3 cut(s)	143, 208, 212
BccI	CCATC	3 cut(s)	868, 896, 979
BciT130I	CCWGG	2 cut(s)	87, 408
BciVI	GTATCC	1 cut(s)	936
BclI	TGATCA	2 cut(s)	625, 688
BcnI	CCSGG	1 cut(s)	768
BcoDI	GTCTC	2 cut(s)	138, 491
BfaI	CTAG	4 cut(s)	372, 719, 756, 945
BfuI	GTATCC	1 cut(s)	936
BisI	GCNGC	3 cut(s)	132, 201, 222
BlsI	GCNGC	3 cut(s)	133, 202, 223
BmcAI	AGTACT	3 cut(s)	154, 700, 830
Bme1390I	CCNGG	3 cut(s)	87, 408, 768
Bme18I	GGWCC	1 cut(s)	456
BmgT120I	GGNCC	1 cut(s)	456
BmrFI	CCNGG	3 cut(s)	87, 408, 768
BpuEI	CTTGAG	4 cut(s)	177, 228, 359, 577
BpuMI	CCSGG	1 cut(s)	768
BsaI	GGTCTC	1 cut(s)	138
BsaJI	CCNNGG	3 cut(s)	24, 116, 766
BsaXI	ACNNNNNCTCC	2 cut(s)	352, 382
Bsc4I	CCNNNNNNNGG	1 cut(s)	989
BseBI	CCWGG	2 cut(s)	87, 408
BseDI	CCNNGG	3 cut(s)	24, 116, 766
BseGI	GGATG	1 cut(s)	979
BseLI	CCNNNNNNNGG	1 cut(s)	989
BseMII	CTCAG	1 cut(s)	534
BseRI	GAGGAG	2 cut(s)	121, 652
BseXI	GCAGC	3 cut(s)	143, 208, 212
BshFI	GGCC	3 cut(s)	115, 562, 1014
BsiHKAI	GWGCWC	1 cut(s)	244
BsiSI	CCGG	1 cut(s)	768
BslFI	GGGAC	1 cut(s)	190
BslI	CCNNNNNNNGG	1 cut(s)	989
BsmAI	GTCTC	2 cut(s)	138, 491
BsmFI	GGGAC	1 cut(s)	190
BsnI	GGCC	3 cut(s)	115, 562, 1014
Bso31I	GGTCTC	1 cut(s)	138
Bsp1286I	GDGCHC	1 cut(s)	244
Bsp143I	GATC	6 cut(s)	56, 625, 688, 772, 841, 930
Bsp19I	CCATGG	1 cut(s)	24
BspANI	GGCC	3 cut(s)	115, 562, 1014
BspCNI	CTCAG	1 cut(s)	533
BspPI	GGATC	1 cut(s)	849
BspTNI	GGTCTC	1 cut(s)	138
BssECI	CCNNGG	3 cut(s)	24, 116, 766
BssMI	GATC	6 cut(s)	56, 625, 688, 772, 841, 930
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
BstC8I	GCNNGC	2 cut(s)	78, 738
BstDEI	CTNAG	2 cut(s)	38, 520
BstDSI	CCRYGG	1 cut(s)	24
BstF5I	GGATG	1 cut(s)	979
BstKTI	GATC	6 cut(s)	59, 628, 691, 775, 844, 933
BstMAI	GTCTC	2 cut(s)	138, 491
BstMBI	GATC	6 cut(s)	56, 625, 688, 772, 841, 930
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, 766
BstV1I	GCAGC	3 cut(s)	143, 208, 212
BsuI	GTATCC	1 cut(s)	936
BsuRI	GGCC	3 cut(s)	115, 562, 1014
BtgI	CCRYGG	1 cut(s)	24
BtsCI	GGATG	1 cut(s)	979
BtsI	GCAGTG	3 cut(s)	186, 592, 651
BtsIMutI	CAGTG	3 cut(s)	186, 592, 651
Cac8I	GCNNGC	2 cut(s)	78, 738
Cfr13I	GGNCC	1 cut(s)	456
CseI	GACGC	1 cut(s)	741
CsiI	ACCWGGT	1 cut(s)	406
Csp6I	GTAC	3 cut(s)	153, 699, 829
CviAII	CATG	6 cut(s)	25, 232, 421, 611, 803, 837
CviQI	GTAC	3 cut(s)	153, 699, 829
DdeI	CTNAG	2 cut(s)	38, 520
DpnI	GATC	6 cut(s)	58, 627, 690, 774, 843, 932
DpnII	GATC	6 cut(s)	56, 625, 688, 772, 841, 930
DraIII	CACNNNGTG	1 cut(s)	686
EaeI	YGGCCR	1 cut(s)	1012
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)	918
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	6 cut(s)	28, 235, 424, 614, 806, 840
FaqI	GGGAC	1 cut(s)	190
FatI	CATG	6 cut(s)	24, 231, 420, 610, 802, 836
FbaI	TGATCA	2 cut(s)	625, 688
Fnu4HI	GCNGC	3 cut(s)	132, 201, 222
FokI	GGATG	1 cut(s)	966
FriOI	GRGCYC	1 cut(s)	244
Fsp4HI	GCNGC	3 cut(s)	132, 201, 222
FspBI	CTAG	4 cut(s)	372, 719, 756, 945
GluI	GCNGC	3 cut(s)	132, 201, 222
HaeIII	GGCC	3 cut(s)	115, 562, 1014
HapII	CCGG	1 cut(s)	768
HgaI	GACGC	1 cut(s)	741
Hin1II	CATG	6 cut(s)	28, 235, 424, 614, 806, 840
HinfI	GANTC	3 cut(s)	367, 795, 807
HpaII	CCGG	1 cut(s)	768
HphI	GGTGA	3 cut(s)	62, 115, 1004
Hpy166II	GTNNAC	1 cut(s)	404
Hpy188I	TCNGA	6 cut(s)	271, 396, 432, 514, 633, 930
Hpy188III	TCNNGA	4 cut(s)	60, 194, 545, 719
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, 656, 909
HpyF10VI	GCNNNNNNNGC	3 cut(s)	82, 197, 206
HpyF3I	CTNAG	2 cut(s)	38, 520
Hsp92II	CATG	6 cut(s)	28, 235, 424, 614, 806, 840
Ksp22I	TGATCA	2 cut(s)	625, 688
Kzo9I	GATC	6 cut(s)	56, 625, 688, 772, 841, 930
LmnI	GCTCC	3 cut(s)	239, 917, 971
Lsp1109I	GCAGC	3 cut(s)	143, 208, 212
MabI	ACCWGGT	1 cut(s)	406
MaeI	CTAG	4 cut(s)	372, 719, 756, 945
MaeIII	GTNAC	3 cut(s)	524, 587, 761
MalI	GATC	6 cut(s)	58, 627, 690, 774, 843, 932
MboI	GATC	6 cut(s)	56, 625, 688, 772, 841, 930
MboII	GAAGA	8 cut(s)	284, 337, 481, 484, 501, 911, 942, 945
MhlI	GDGCHC	1 cut(s)	244
MlsI	TGGCCA	1 cut(s)	1014
MluCI	AATT	4 cut(s)	6, 634, 850, 1002
MluNI	TGGCCA	1 cut(s)	1014
MlyI	GAGTC	1 cut(s)	361
Mox20I	TGGCCA	1 cut(s)	1014
MscI	TGGCCA	1 cut(s)	1014
Msp20I	TGGCCA	1 cut(s)	1014
MspI	CCGG	1 cut(s)	768
MspR9I	CCNGG	3 cut(s)	87, 408, 768
MvaI	CCWGG	2 cut(s)	87, 408
MwoI	GCNNNNNNNGC	3 cut(s)	82, 197, 206
NciI	CCSGG	1 cut(s)	768
NcoI	CCATGG	1 cut(s)	24
NdeII	GATC	6 cut(s)	56, 625, 688, 772, 841, 930
NlaIII	CATG	6 cut(s)	28, 235, 424, 614, 806, 840
NmeAIII	GCCGAG	1 cut(s)	160
NmuCI	GTSAC	1 cut(s)	587
NspI	RCATGY	1 cut(s)	424
PceI	AGGCCT	2 cut(s)	115, 562
PcsI	WCGNNNNNNNCGW	1 cut(s)	749
PfeI	GAWTC	2 cut(s)	795, 807
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, 700, 830
RsaNI	GTAC	3 cut(s)	153, 699, 829
SacI	GAGCTC	1 cut(s)	244
SatI	GCNGC	3 cut(s)	132, 201, 222
Sau3AI	GATC	6 cut(s)	56, 625, 688, 772, 841, 930
Sau96I	GGNCC	1 cut(s)	456
ScaI	AGTACT	3 cut(s)	154, 700, 830
SchI	GAGTC	1 cut(s)	361
ScrFI	CCNGG	3 cut(s)	87, 408, 768
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, 634, 850, 1002
SseBI	AGGCCT	2 cut(s)	115, 562
SspI	AATATT	2 cut(s)	451, 622
SspMI	CTAG	4 cut(s)	372, 719, 756, 945
SstI	GAGCTC	1 cut(s)	244
StuI	AGGCCT	2 cut(s)	115, 562
StyD4I	CCNGG	3 cut(s)	85, 406, 766
StyI	CCWWGG	2 cut(s)	24, 116
TaaI	ACNGT	1 cut(s)	401
TaqI	TCGA	2 cut(s)	743, 936
TasI	AATT	4 cut(s)	6, 634, 850, 1002
TatI	WGTACW	3 cut(s)	152, 698, 828
TfiI	GAWTC	2 cut(s)	795, 807
TscAI	CASTG	3 cut(s)	193, 592, 658
TseFI	GTSAC	1 cut(s)	587
TseI	GCWGC	3 cut(s)	131, 200, 221
Tsp45I	GTSAC	1 cut(s)	587
TspDTI	ATGAA	5 cut(s)	248, 250, 480, 743, 968
TspRI	CASTG	3 cut(s)	193, 592, 658
VpaK11BI	GGWCC	1 cut(s)	456
XapI	RAATTY	1 cut(s)	634
XbaI	TCTAGA	1 cut(s)	718
XceI	RCATGY	1 cut(s)	424
XspI	CTAG	4 cut(s)	372, 719, 756, 945
ZrmI	AGTACT	3 cut(s)	154, 700, 830

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