Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4C

Orthogroup ID

OG0014467

Physical Location & Seq

Genomic Coordinates Forward (+)

66243523 .. 66247523

Gene Structure 4001 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4CG417800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 693 bp

ATGACGACGCTGAACCGTCTCTTTGATCTCCCTGAGCAGATTTGCTATGTCCAGTGTGGTTTCTGCGCCACCATATTACTGGTGAGTGTGCCATGCAGCAGTTTGTCAAGATTGGTCACAGTCAGATGTGGTCACTGCAGTTGCCTCCTATCAGTCAACATGTTAAAAGCTTCCTTTCTCCCTTTTCATCACTTAGCTTCACTTGGCCAAGACGTCGATCAGGAAAAAGATCAAGAAATCTGTGTGGAAGAAGTGGAGGAAGTGAAGTATCCCGGGTTGGGCGATATGCGCAGCCCATCCATGGCGGTTTCTAATAATTCTGAAAATGAAGAGTACACAAACACAATCACACTGAATCACATTGTTAACAAACCTCCAGAGAAGAGACAACGAGCTCCATCCGCTTATAACCGTTTTATCAAAGAAGAGATCCAGAGGCTTAAAGCTGAAAATCCAAGCATGACTCACAAGGAAGCCTTCAGTACAGCTGCAAAGAATTGGGCACAGTTCCCTCCAGTTCAGTACAAAATAGATGGTCCAGATCATGGAGAGAGCTCTAGCCAACTGATTAGAGAGGATCAAAATGTTACATGGAACTCTGATGTCACTGATCAGGTTCAGGAAGATGGCGGAGTTTTTCGTGAGAGAAAAGCCCCAAGGCAGTCCATATGGGCAAGGACACCAATCGAGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0003002 GO:0003006 GO:0003674 GO:0003700 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006355 GO:0007275 GO:0007389 GO:0008150 GO:0009791 GO:0009798 GO:0009889 GO:0009908 GO:0009943 GO:0009944 GO:0009955 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0022414 GO:0031323 GO:0031326 GO:0032501 GO:0032502 GO:0035670 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464 GO:0048367 GO:0048437 GO:0048438 GO:0048440 GO:0048467 GO:0048481 GO:0048608 GO:0048731 GO:0048827 GO:0048856 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0060255 GO:0061458 GO:0065001 GO:0065007 GO:0080090 GO:0090567 GO:0099402 GO:0140110 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

YABBY

Protein Analysis

230

Amino Acids

26.05

Weight (kDa)

5.45

Isoelectric Point (pI)

49.93

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
YABBY_N	PF24868	10 - 64	1.8e-25	YABBY, N-terminal
YABBY	PF04690	113 - 176	1.1e-36	YABBY protein, C-terminal
Ccdc124	PF06244	119 - 170	4e-06	Coiled-coil domain-containing protein 124 /Oxs1

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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Publication-ready

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Orthologous Genes (Group: OG0014467)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G23420 AT1G23420
fragaria_vesca	FvH4_4g32910
malus_domestica	MD13G1094900.v1.1 MD16G1096000.v1.1
prunus_persica	Prupe.1G250500_v2.0.a1
rosa_chinensis	RchiOBHm_Chr4g0441941
rosa_laevigata	RLG00000006055
rosa_multiflora	Rmu_sc0002501.1_g000032 Rmu_sc0011990.1_g000010
rosa_roxburghii	Rroxscaffold_5G00382770
rosa_rugosa	Rorug04G0337000
rosa_samantha	Rh4AG389000 Rh4BG402600 Rh4CG417800 Rh4DG395800
rosa_wichuraiana	Rw4G033590

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	408
AatII	GACGTC	1 cut(s)	216
Acc16I	TGCGCA	1 cut(s)	290
AccB7I	CCANNNNNTGG	1 cut(s)	545
AciI	CCGC	3 cut(s)	305, 402, 630
AclWI	GGATC	2 cut(s)	424, 585
AcoI	YGGCCR	1 cut(s)	205
AcuI	CTGAAG	1 cut(s)	463
AcyI	GRCGYC	1 cut(s)	213
AfaI	GTAC	3 cut(s)	335, 484, 524
AfiI	CCNNNNNNNGG	3 cut(s)	278, 301, 545
AflIII	ACRYGT	1 cut(s)	159
AluBI	AGCT	6 cut(s)	170, 197, 395, 446, 488, 555
AluI	AGCT	6 cut(s)	170, 197, 395, 446, 488, 555
Alw21I	GWGCWC	2 cut(s)	397, 557
Alw26I	GTCTC	2 cut(s)	23, 379
AlwI	GGATC	2 cut(s)	424, 585
Ama87I	CYCGRG	1 cut(s)	272
AoxI	GGCC	1 cut(s)	205
ApeKI	GCWGC	3 cut(s)	96, 291, 488
AspLEI	GCGC	2 cut(s)	68, 291
AspS9I	GGNCC	1 cut(s)	536
AsuC2I	CCSGG	2 cut(s)	273, 274
AsuHPI	GGTGA	1 cut(s)	94
AvaI	CYCGRG	1 cut(s)	272
AvaII	GGWCC	1 cut(s)	536
BaeGI	GKGCMC	1 cut(s)	505
BalI	TGGCCA	1 cut(s)	207
BanII	GRGCYC	2 cut(s)	397, 557
Bbv12I	GWGCWC	2 cut(s)	397, 557
BbvI	GCAGC	3 cut(s)	108, 303, 475
BccI	CCATC	4 cut(s)	304, 406, 527, 620
BciVI	GTATCC	1 cut(s)	279
BclI	TGATCA	1 cut(s)	610
BcnI	CCSGG	2 cut(s)	273, 274
BcoDI	GTCTC	2 cut(s)	23, 379
BfaI	CTAG	1 cut(s)	558
BfmI	CTRYAG	1 cut(s)	136
BfuI	GTATCC	1 cut(s)	279
BisI	GCNGC	3 cut(s)	97, 292, 489
BlsI	GCNGC	3 cut(s)	98, 293, 490
Bme1390I	CCNGG	2 cut(s)	273, 274
Bme18I	GGWCC	1 cut(s)	536
BmeT110I	CYCGRG	1 cut(s)	272
BmgT120I	GGNCC	1 cut(s)	536
BmrFI	CCNGG	2 cut(s)	273, 274
BpmI	CTGGAG	2 cut(s)	360, 498
Bpu10I	CCTNAGC	1 cut(s)	33
BpuMI	CCSGG	2 cut(s)	273, 274
BsaHI	GRCGYC	1 cut(s)	213
BsaJI	CCNNGG	3 cut(s)	272, 300, 656
Bsc4I	CCNNNNNNNGG	3 cut(s)	278, 301, 545
Bse1I	ACTGG	3 cut(s)	52, 84, 515
BseDI	CCNNGG	3 cut(s)	272, 300, 656
BseGI	GGATG	2 cut(s)	296, 398
BseLI	CCNNNNNNNGG	3 cut(s)	278, 301, 545
BseMII	CTCAG	1 cut(s)	24
BseNI	ACTGG	3 cut(s)	52, 84, 515
BseSI	GKGCMC	1 cut(s)	505
BseXI	GCAGC	3 cut(s)	108, 303, 475
BshFI	GGCC	1 cut(s)	207
BsiHKAI	GWGCWC	2 cut(s)	397, 557
BsiHKCI	CYCGRG	1 cut(s)	272
BsiSI	CCGG	1 cut(s)	273
BslI	CCNNNNNNNGG	3 cut(s)	278, 301, 545
BsmAI	GTCTC	2 cut(s)	23, 379
BsmBI	CGTCTC	1 cut(s)	23
BsnI	GGCC	1 cut(s)	207
BsoBI	CYCGRG	1 cut(s)	272
Bsp1286I	GDGCHC	3 cut(s)	397, 505, 557
Bsp143I	GATC	7 cut(s)	25, 217, 229, 429, 541, 577, 610
Bsp19I	CCATGG	1 cut(s)	300
BspACI	CCGC	3 cut(s)	305, 402, 630
BspANI	GGCC	1 cut(s)	207
BspCNI	CTCAG	1 cut(s)	25
BspMAI	CTGCAG	1 cut(s)	140
BspPI	GGATC	2 cut(s)	424, 585
BsrI	ACTGG	3 cut(s)	52, 84, 515
BssECI	CCNNGG	3 cut(s)	272, 300, 656
BssMI	GATC	7 cut(s)	25, 217, 229, 429, 541, 577, 610
BssNI	GRCGYC	1 cut(s)	213
BssT1I	CCWWGG	2 cut(s)	300, 656
Bst4CI	ACNGT	4 cut(s)	17, 121, 413, 507
Bst6I	CTCTTC	3 cut(s)	324, 377, 420
BstACI	GRCGYC	1 cut(s)	213
BstDEI	CTNAG	2 cut(s)	33, 193
BstDSI	CCRYGG	1 cut(s)	300
BstF5I	GGATG	2 cut(s)	296, 398
BstHHI	GCGC	2 cut(s)	68, 291
BstKTI	GATC	7 cut(s)	28, 220, 232, 432, 544, 580, 613
BstMAI	GTCTC	2 cut(s)	23, 379
BstMBI	GATC	7 cut(s)	25, 217, 229, 429, 541, 577, 610
BstMWI	GCNNNNNNNGC	2 cut(s)	288, 401
BstNSI	RCATGY	1 cut(s)	163
BstSCI	CCNGG	2 cut(s)	271, 272
BstSFI	CTRYAG	1 cut(s)	136
BstSLI	GKGCMC	1 cut(s)	505
BstV1I	GCAGC	3 cut(s)	108, 303, 475
BstX2I	RGATCY	1 cut(s)	429
BstXI	CCANNNNNNTGG	1 cut(s)	79
BstYI	RGATCY	1 cut(s)	429
BsuI	GTATCC	1 cut(s)	279
BsuRI	GGCC	1 cut(s)	207
BtgI	CCRYGG	1 cut(s)	300
BtsCI	GGATG	2 cut(s)	296, 398
BtsI	GCAGTG	1 cut(s)	133
BtsIMutI	CAGTG	4 cut(s)	59, 133, 350, 606
CfoI	GCGC	2 cut(s)	68, 291
Cfr13I	GGNCC	1 cut(s)	536
Cfr9I	CCCGGG	1 cut(s)	272
CseI	GACGC	1 cut(s)	16
Csp6I	GTAC	3 cut(s)	334, 483, 523
CviAII	CATG	6 cut(s)	93, 160, 301, 460, 545, 591
CviQI	GTAC	3 cut(s)	334, 483, 523
DdeI	CTNAG	2 cut(s)	33, 193
DpnI	GATC	7 cut(s)	27, 219, 231, 431, 543, 579, 612
DpnII	GATC	7 cut(s)	25, 217, 229, 429, 541, 577, 610
EaeI	YGGCCR	1 cut(s)	205
Eam1104I	CTCTTC	3 cut(s)	324, 377, 420
EarI	CTCTTC	3 cut(s)	324, 377, 420
EciI	GGCGGA	1 cut(s)	645
Ecl136II	GAGCTC	2 cut(s)	395, 555
Eco130I	CCWWGG	2 cut(s)	300, 656
Eco24I	GRGCYC	2 cut(s)	397, 557
Eco47I	GGWCC	1 cut(s)	536
Eco53kI	GAGCTC	2 cut(s)	395, 555
Eco57I	CTGAAG	1 cut(s)	463
Eco88I	CYCGRG	1 cut(s)	272
EcoICRI	GAGCTC	2 cut(s)	395, 555
EcoT14I	CCWWGG	2 cut(s)	300, 656
EcoT38I	GRGCYC	2 cut(s)	397, 557
ErhI	CCWWGG	2 cut(s)	300, 656
Esp3I	CGTCTC	1 cut(s)	23
FaeI	CATG	6 cut(s)	96, 163, 304, 463, 548, 594
FalI	AAGNNNNNCTT	2 cut(s)	461, 493
FatI	CATG	6 cut(s)	92, 159, 300, 459, 544, 590
FauNDI	CATATG	1 cut(s)	668
FbaI	TGATCA	1 cut(s)	610
Fnu4HI	GCNGC	3 cut(s)	97, 292, 489
FokI	GGATG	2 cut(s)	283, 385
FriOI	GRGCYC	2 cut(s)	397, 557
Fsp4HI	GCNGC	3 cut(s)	97, 292, 489
FspBI	CTAG	1 cut(s)	558
FspI	TGCGCA	1 cut(s)	290
GlaI	GCGC	2 cut(s)	67, 290
GluI	GCNGC	3 cut(s)	97, 292, 489
GsuI	CTGGAG	2 cut(s)	360, 498
HaeIII	GGCC	1 cut(s)	207
HapII	CCGG	1 cut(s)	273
HgaI	GACGC	1 cut(s)	16
HhaI	GCGC	2 cut(s)	68, 291
Hin1I	GRCGYC	1 cut(s)	213
Hin1II	CATG	6 cut(s)	96, 163, 304, 463, 548, 594
Hin6I	GCGC	2 cut(s)	66, 289
HinP1I	GCGC	2 cut(s)	66, 289
HincII	GTYRAC	2 cut(s)	157, 367
HindII	GTYRAC	2 cut(s)	157, 367
HindIII	AAGCTT	1 cut(s)	168
HinfI	GANTC	2 cut(s)	355, 463
HpaI	GTTAAC	1 cut(s)	367
HpaII	CCGG	1 cut(s)	273
HphI	GGTGA	1 cut(s)	94
Hpy166II	GTNNAC	3 cut(s)	157, 336, 367
Hpy188I	TCNGA	3 cut(s)	125, 322, 601
Hpy188III	TCNNGA	8 cut(s)	108, 221, 233, 377, 433, 539, 620, 641
Hpy8I	GTNNAC	3 cut(s)	157, 336, 367
Hpy99I	CGWCG	2 cut(s)	10, 218
HpyAV	CCTTC	1 cut(s)	487
HpyCH4III	ACNGT	4 cut(s)	17, 121, 413, 507
HpyCH4IV	ACGT	1 cut(s)	213
HpyCH4V	TGCA	3 cut(s)	96, 138, 491
HpyF10VI	GCNNNNNNNGC	2 cut(s)	288, 401
HpyF3I	CTNAG	2 cut(s)	33, 193
HpySE526I	ACGT	1 cut(s)	213
Hsp92I	GRCGYC	1 cut(s)	213
Hsp92II	CATG	6 cut(s)	96, 163, 304, 463, 548, 594
HspAI	GCGC	2 cut(s)	66, 289
Ksp22I	TGATCA	1 cut(s)	610
KspAI	GTTAAC	1 cut(s)	367
Kzo9I	GATC	7 cut(s)	25, 217, 229, 429, 541, 577, 610
LmnI	GCTCC	1 cut(s)	400
Lsp1109I	GCAGC	3 cut(s)	108, 303, 475
MaeI	CTAG	1 cut(s)	558
MaeII	ACGT	1 cut(s)	213
MaeIII	GTNAC	4 cut(s)	115, 131, 586, 604
MalI	GATC	7 cut(s)	27, 219, 231, 431, 543, 579, 612
MboI	GATC	7 cut(s)	25, 217, 229, 429, 541, 577, 610
MboII	GAAGA	5 cut(s)	260, 341, 394, 437, 635
MflI	RGATCY	1 cut(s)	429
MhlI	GDGCHC	3 cut(s)	397, 505, 557
MlsI	TGGCCA	1 cut(s)	207
MluCI	AATT	2 cut(s)	316, 496
MluNI	TGGCCA	1 cut(s)	207
MlyI	GAGTC	1 cut(s)	457
MnlI	CCTC	6 cut(s)	155, 250, 384, 429, 522, 568
Mox20I	TGGCCA	1 cut(s)	207
MscI	TGGCCA	1 cut(s)	207
MseI	TTAA	3 cut(s)	164, 366, 441
Msp20I	TGGCCA	1 cut(s)	207
MspA1I	CMGCKG	1 cut(s)	488
MspI	CCGG	1 cut(s)	273
MspR9I	CCNGG	2 cut(s)	273, 274
MwoI	GCNNNNNNNGC	2 cut(s)	288, 401
NciI	CCSGG	2 cut(s)	273, 274
NcoI	CCATGG	1 cut(s)	300
NdeI	CATATG	1 cut(s)	668
NdeII	GATC	7 cut(s)	25, 217, 229, 429, 541, 577, 610
NlaIII	CATG	6 cut(s)	96, 163, 304, 463, 548, 594
NmuCI	GTSAC	3 cut(s)	115, 131, 604
NsbI	TGCGCA	1 cut(s)	290
NspI	RCATGY	1 cut(s)	163
PciI	ACATGT	1 cut(s)	159
PfeI	GAWTC	1 cut(s)	355
PflMI	CCANNNNNTGG	1 cut(s)	545
PkrI	GCNGC	3 cut(s)	98, 293, 490
PleI	GAGTC	1 cut(s)	457
PpsI	GAGTC	1 cut(s)	457
PscI	ACATGT	1 cut(s)	159
PsiI	TTATAA	1 cut(s)	408
Psp124BI	GAGCTC	2 cut(s)	397, 557
PspPI	GGNCC	1 cut(s)	536
PstI	CTGCAG	1 cut(s)	140
PsuI	RGATCY	1 cut(s)	429
PvuII	CAGCTG	1 cut(s)	488
RsaI	GTAC	3 cut(s)	335, 484, 524
RsaNI	GTAC	3 cut(s)	334, 483, 523
SacI	GAGCTC	2 cut(s)	397, 557
SaqAI	TTAA	3 cut(s)	164, 366, 441
SatI	GCNGC	3 cut(s)	97, 292, 489
Sau3AI	GATC	7 cut(s)	25, 217, 229, 429, 541, 577, 610
Sau96I	GGNCC	1 cut(s)	536
SchI	GAGTC	1 cut(s)	457
ScrFI	CCNGG	2 cut(s)	273, 274
SduI	GDGCHC	3 cut(s)	397, 505, 557
SetI	ASST	9 cut(s)	172, 199, 216, 376, 397, 448, 490, 557, 618
SfcI	CTRYAG	1 cut(s)	136
SinI	GGWCC	1 cut(s)	536
SmaI	CCCGGG	1 cut(s)	274
Sse9I	AATT	2 cut(s)	316, 496
SsiI	CCGC	3 cut(s)	305, 402, 630
SspMI	CTAG	1 cut(s)	558
SstI	GAGCTC	2 cut(s)	397, 557
StyD4I	CCNGG	2 cut(s)	271, 272
StyI	CCWWGG	2 cut(s)	300, 656
TaaI	ACNGT	4 cut(s)	17, 121, 413, 507
TaiI	ACGT	1 cut(s)	216
TaqI	TCGA	2 cut(s)	216, 687
TasI	AATT	2 cut(s)	316, 496
TatI	WGTACW	3 cut(s)	333, 482, 522
TfiI	GAWTC	1 cut(s)	355
Tru1I	TTAA	3 cut(s)	164, 366, 441
Tru9I	TTAA	3 cut(s)	164, 366, 441
TscAI	CASTG	4 cut(s)	59, 140, 357, 613
TseFI	GTSAC	3 cut(s)	115, 131, 604
TseI	GCWGC	3 cut(s)	96, 291, 488
Tsp45I	GTSAC	3 cut(s)	115, 131, 604
TspDTI	ATGAA	2 cut(s)	176, 342
TspMI	CCCGGG	1 cut(s)	272
TspRI	CASTG	4 cut(s)	59, 140, 357, 613
Van91I	CCANNNNNTGG	1 cut(s)	545
VpaK11BI	GGWCC	1 cut(s)	536
XceI	RCATGY	1 cut(s)	163
XcmI	CCANNNNNNNNNTGG	1 cut(s)	76
XmaI	CCCGGG	1 cut(s)	272
XspI	CTAG	1 cut(s)	558
ZraI	GACGTC	1 cut(s)	214

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