Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0014467

Physical Location & Seq

Genomic Coordinates Forward (+)

61239450 .. 61243503

Gene Structure 4054 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG395800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 690 bp

ATGACGACGCTGAACGGTCTCTTTGATCTCCCTGAGCAGATTTGCTATGTCCAGTGTGGTTTCTGCGCCACCATATTACTGGTGAGTGTGCCATGCAGCAGTTTGTCAAGATTGGTCACAGTCAGATGTGGTCACTGCAGTTGCCTCCTATCAGTCAACATGTTAAAAGCTTCCTTTCTCCCTTTTCATCTCTTAGCTTCACTTGGCCAGAACGTCGATCAGGAAAAAGATCAAGAAATCTGTGTGGAAGAAGTGGAGGAAGTGAAGTATCCCGGGTTGGGCGATATGCGCAGCCCATCCATGGCGGTTTCTAATAATTCTGAAAATGAAGAGTACACAAACATCACACTGAATCACATTGTTAACAAACCTCCAGAGAAGAGACAACGAGCTCCATCCGCTTATAACCGTTTTATCAAAGAAGAGATCCAGAGGCTTAAAGCTGAAAATCCAAGCATGACTCACAAGGAAGCCTTCAGTACAGCTGCAAAGAATTGGGCACAGTTCCCTCCAGTTCAGTACAAAATAGATGGTCCAGATCATGGAGAGAGCTCTAGCCAACTGATTAGAGAGGATCAAAATGTTACATGGAACTCTGATGTCACTGATCAGGTTCAGGAAGATGGCGGAGTTTTTCGTGAGAGAAAAGCCCCAAGGCAGTCCATATGGGCAAGGACACCAATCGAGTGA

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

229

Amino Acids

25.82

Weight (kDa)

5.34

Isoelectric Point (pI)

50.9

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
YABBY_N	PF24868	10 - 62	3.6e-25	YABBY, N-terminal
YABBY	PF04690	110 - 175	1.5e-36	YABBY protein, C-terminal
Ccdc124	PF06244	119 - 169	5.4e-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)	405
Acc16I	TGCGCA	1 cut(s)	290
AccB7I	CCANNNNNTGG	1 cut(s)	542
AciI	CCGC	3 cut(s)	305, 399, 627
AclWI	GGATC	2 cut(s)	421, 582
AcoI	YGGCCR	1 cut(s)	205
AcuI	CTGAAG	1 cut(s)	460
AfaI	GTAC	3 cut(s)	335, 481, 521
AfiI	CCNNNNNNNGG	3 cut(s)	278, 301, 542
AflIII	ACRYGT	1 cut(s)	159
AluBI	AGCT	6 cut(s)	170, 197, 392, 443, 485, 552
AluI	AGCT	6 cut(s)	170, 197, 392, 443, 485, 552
Alw21I	GWGCWC	2 cut(s)	394, 554
Alw26I	GTCTC	2 cut(s)	23, 376
AlwI	GGATC	2 cut(s)	421, 582
Ama87I	CYCGRG	1 cut(s)	272
AoxI	GGCC	1 cut(s)	205
ApeKI	GCWGC	3 cut(s)	96, 291, 485
AspLEI	GCGC	2 cut(s)	68, 291
AspS9I	GGNCC	1 cut(s)	533
AsuC2I	CCSGG	2 cut(s)	273, 274
AsuHPI	GGTGA	1 cut(s)	94
AvaI	CYCGRG	1 cut(s)	272
AvaII	GGWCC	1 cut(s)	533
BaeGI	GKGCMC	1 cut(s)	502
BalI	TGGCCA	1 cut(s)	207
BanII	GRGCYC	2 cut(s)	394, 554
Bbv12I	GWGCWC	2 cut(s)	394, 554
BbvI	GCAGC	3 cut(s)	108, 303, 472
BccI	CCATC	4 cut(s)	304, 403, 524, 617
BciVI	GTATCC	1 cut(s)	279
BclI	TGATCA	1 cut(s)	607
BcnI	CCSGG	2 cut(s)	273, 274
BcoDI	GTCTC	2 cut(s)	23, 376
BfaI	CTAG	1 cut(s)	555
BfmI	CTRYAG	1 cut(s)	136
BfuI	GTATCC	1 cut(s)	279
BisI	GCNGC	3 cut(s)	97, 292, 486
BlsI	GCNGC	3 cut(s)	98, 293, 487
Bme1390I	CCNGG	2 cut(s)	273, 274
Bme18I	GGWCC	1 cut(s)	533
BmeT110I	CYCGRG	1 cut(s)	272
BmgT120I	GGNCC	1 cut(s)	533
BmrFI	CCNGG	2 cut(s)	273, 274
BpmI	CTGGAG	2 cut(s)	357, 495
Bpu10I	CCTNAGC	1 cut(s)	33
BpuMI	CCSGG	2 cut(s)	273, 274
BsaI	GGTCTC	1 cut(s)	23
BsaJI	CCNNGG	3 cut(s)	272, 300, 653
Bsc4I	CCNNNNNNNGG	3 cut(s)	278, 301, 542
Bse1I	ACTGG	3 cut(s)	52, 84, 512
BseDI	CCNNGG	3 cut(s)	272, 300, 653
BseGI	GGATG	2 cut(s)	296, 395
BseLI	CCNNNNNNNGG	3 cut(s)	278, 301, 542
BseMII	CTCAG	1 cut(s)	24
BseNI	ACTGG	3 cut(s)	52, 84, 512
BseSI	GKGCMC	1 cut(s)	502
BseXI	GCAGC	3 cut(s)	108, 303, 472
BshFI	GGCC	1 cut(s)	207
BsiHKAI	GWGCWC	2 cut(s)	394, 554
BsiHKCI	CYCGRG	1 cut(s)	272
BsiSI	CCGG	1 cut(s)	273
BslI	CCNNNNNNNGG	3 cut(s)	278, 301, 542
BsmAI	GTCTC	2 cut(s)	23, 376
BsnI	GGCC	1 cut(s)	207
Bso31I	GGTCTC	1 cut(s)	23
BsoBI	CYCGRG	1 cut(s)	272
Bsp1286I	GDGCHC	3 cut(s)	394, 502, 554
Bsp143I	GATC	7 cut(s)	25, 217, 229, 426, 538, 574, 607
Bsp19I	CCATGG	1 cut(s)	300
BspACI	CCGC	3 cut(s)	305, 399, 627
BspANI	GGCC	1 cut(s)	207
BspCNI	CTCAG	1 cut(s)	25
BspMAI	CTGCAG	1 cut(s)	140
BspPI	GGATC	2 cut(s)	421, 582
BspTNI	GGTCTC	1 cut(s)	23
BsrI	ACTGG	3 cut(s)	52, 84, 512
BssECI	CCNNGG	3 cut(s)	272, 300, 653
BssMI	GATC	7 cut(s)	25, 217, 229, 426, 538, 574, 607
BssT1I	CCWWGG	2 cut(s)	300, 653
Bst4CI	ACNGT	4 cut(s)	17, 121, 410, 504
Bst6I	CTCTTC	3 cut(s)	324, 374, 417
BstDEI	CTNAG	2 cut(s)	33, 193
BstDSI	CCRYGG	1 cut(s)	300
BstF5I	GGATG	2 cut(s)	296, 395
BstHHI	GCGC	2 cut(s)	68, 291
BstKTI	GATC	7 cut(s)	28, 220, 232, 429, 541, 577, 610
BstMAI	GTCTC	2 cut(s)	23, 376
BstMBI	GATC	7 cut(s)	25, 217, 229, 426, 538, 574, 607
BstMWI	GCNNNNNNNGC	2 cut(s)	288, 398
BstNSI	RCATGY	1 cut(s)	163
BstSCI	CCNGG	2 cut(s)	271, 272
BstSFI	CTRYAG	1 cut(s)	136
BstSLI	GKGCMC	1 cut(s)	502
BstV1I	GCAGC	3 cut(s)	108, 303, 472
BstX2I	RGATCY	1 cut(s)	426
BstXI	CCANNNNNNTGG	1 cut(s)	79
BstYI	RGATCY	1 cut(s)	426
BsuI	GTATCC	1 cut(s)	279
BsuRI	GGCC	1 cut(s)	207
BtgI	CCRYGG	1 cut(s)	300
BtsCI	GGATG	2 cut(s)	296, 395
BtsI	GCAGTG	1 cut(s)	133
BtsIMutI	CAGTG	4 cut(s)	59, 133, 347, 603
CfoI	GCGC	2 cut(s)	68, 291
Cfr13I	GGNCC	1 cut(s)	533
Cfr9I	CCCGGG	1 cut(s)	272
CseI	GACGC	1 cut(s)	16
Csp6I	GTAC	3 cut(s)	334, 480, 520
CviAII	CATG	6 cut(s)	93, 160, 301, 457, 542, 588
CviQI	GTAC	3 cut(s)	334, 480, 520
DdeI	CTNAG	2 cut(s)	33, 193
DpnI	GATC	7 cut(s)	27, 219, 231, 428, 540, 576, 609
DpnII	GATC	7 cut(s)	25, 217, 229, 426, 538, 574, 607
EaeI	YGGCCR	1 cut(s)	205
Eam1104I	CTCTTC	3 cut(s)	324, 374, 417
EarI	CTCTTC	3 cut(s)	324, 374, 417
EciI	GGCGGA	1 cut(s)	642
Ecl136II	GAGCTC	2 cut(s)	392, 552
Eco130I	CCWWGG	2 cut(s)	300, 653
Eco24I	GRGCYC	2 cut(s)	394, 554
Eco31I	GGTCTC	1 cut(s)	23
Eco47I	GGWCC	1 cut(s)	533
Eco53kI	GAGCTC	2 cut(s)	392, 552
Eco57I	CTGAAG	1 cut(s)	460
Eco88I	CYCGRG	1 cut(s)	272
EcoICRI	GAGCTC	2 cut(s)	392, 552
EcoT14I	CCWWGG	2 cut(s)	300, 653
EcoT38I	GRGCYC	2 cut(s)	394, 554
ErhI	CCWWGG	2 cut(s)	300, 653
FaeI	CATG	6 cut(s)	96, 163, 304, 460, 545, 591
FalI	AAGNNNNNCTT	2 cut(s)	458, 490
FatI	CATG	6 cut(s)	92, 159, 300, 456, 541, 587
FauNDI	CATATG	1 cut(s)	665
FbaI	TGATCA	1 cut(s)	607
Fnu4HI	GCNGC	3 cut(s)	97, 292, 486
FokI	GGATG	2 cut(s)	283, 382
FriOI	GRGCYC	2 cut(s)	394, 554
Fsp4HI	GCNGC	3 cut(s)	97, 292, 486
FspBI	CTAG	1 cut(s)	555
FspI	TGCGCA	1 cut(s)	290
GlaI	GCGC	2 cut(s)	67, 290
GluI	GCNGC	3 cut(s)	97, 292, 486
GsuI	CTGGAG	2 cut(s)	357, 495
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
Hin1II	CATG	6 cut(s)	96, 163, 304, 460, 545, 591
Hin6I	GCGC	2 cut(s)	66, 289
HinP1I	GCGC	2 cut(s)	66, 289
HincII	GTYRAC	2 cut(s)	157, 364
HindII	GTYRAC	2 cut(s)	157, 364
HindIII	AAGCTT	1 cut(s)	168
HinfI	GANTC	2 cut(s)	352, 460
HpaI	GTTAAC	1 cut(s)	364
HpaII	CCGG	1 cut(s)	273
HphI	GGTGA	1 cut(s)	94
Hpy166II	GTNNAC	3 cut(s)	157, 336, 364
Hpy188I	TCNGA	3 cut(s)	125, 322, 598
Hpy188III	TCNNGA	8 cut(s)	108, 221, 233, 374, 430, 536, 617, 638
Hpy8I	GTNNAC	3 cut(s)	157, 336, 364
Hpy99I	CGWCG	2 cut(s)	10, 218
HpyAV	CCTTC	1 cut(s)	484
HpyCH4III	ACNGT	4 cut(s)	17, 121, 410, 504
HpyCH4IV	ACGT	1 cut(s)	213
HpyCH4V	TGCA	3 cut(s)	96, 138, 488
HpyF10VI	GCNNNNNNNGC	2 cut(s)	288, 398
HpyF3I	CTNAG	2 cut(s)	33, 193
HpySE526I	ACGT	1 cut(s)	213
Hsp92II	CATG	6 cut(s)	96, 163, 304, 460, 545, 591
HspAI	GCGC	2 cut(s)	66, 289
Ksp22I	TGATCA	1 cut(s)	607
KspAI	GTTAAC	1 cut(s)	364
Kzo9I	GATC	7 cut(s)	25, 217, 229, 426, 538, 574, 607
LmnI	GCTCC	1 cut(s)	397
Lsp1109I	GCAGC	3 cut(s)	108, 303, 472
MaeI	CTAG	1 cut(s)	555
MaeII	ACGT	1 cut(s)	213
MaeIII	GTNAC	4 cut(s)	115, 131, 583, 601
MalI	GATC	7 cut(s)	27, 219, 231, 428, 540, 576, 609
MboI	GATC	7 cut(s)	25, 217, 229, 426, 538, 574, 607
MboII	GAAGA	5 cut(s)	260, 341, 391, 434, 632
MflI	RGATCY	1 cut(s)	426
MhlI	GDGCHC	3 cut(s)	394, 502, 554
MlsI	TGGCCA	1 cut(s)	207
MluCI	AATT	2 cut(s)	316, 493
MluNI	TGGCCA	1 cut(s)	207
MlyI	GAGTC	1 cut(s)	454
MnlI	CCTC	6 cut(s)	155, 250, 381, 426, 519, 565
Mox20I	TGGCCA	1 cut(s)	207
MscI	TGGCCA	1 cut(s)	207
MseI	TTAA	3 cut(s)	164, 363, 438
Msp20I	TGGCCA	1 cut(s)	207
MspA1I	CMGCKG	1 cut(s)	485
MspI	CCGG	1 cut(s)	273
MspR9I	CCNGG	2 cut(s)	273, 274
MwoI	GCNNNNNNNGC	2 cut(s)	288, 398
NciI	CCSGG	2 cut(s)	273, 274
NcoI	CCATGG	1 cut(s)	300
NdeI	CATATG	1 cut(s)	665
NdeII	GATC	7 cut(s)	25, 217, 229, 426, 538, 574, 607
NlaIII	CATG	6 cut(s)	96, 163, 304, 460, 545, 591
NmuCI	GTSAC	3 cut(s)	115, 131, 601
NsbI	TGCGCA	1 cut(s)	290
NspI	RCATGY	1 cut(s)	163
PciI	ACATGT	1 cut(s)	159
PfeI	GAWTC	1 cut(s)	352
PflMI	CCANNNNNTGG	1 cut(s)	542
PkrI	GCNGC	3 cut(s)	98, 293, 487
PleI	GAGTC	1 cut(s)	454
PpsI	GAGTC	1 cut(s)	454
PscI	ACATGT	1 cut(s)	159
PsiI	TTATAA	1 cut(s)	405
Psp124BI	GAGCTC	2 cut(s)	394, 554
PspPI	GGNCC	1 cut(s)	533
PstI	CTGCAG	1 cut(s)	140
PsuI	RGATCY	1 cut(s)	426
PvuII	CAGCTG	1 cut(s)	485
RsaI	GTAC	3 cut(s)	335, 481, 521
RsaNI	GTAC	3 cut(s)	334, 480, 520
SacI	GAGCTC	2 cut(s)	394, 554
SaqAI	TTAA	3 cut(s)	164, 363, 438
SatI	GCNGC	3 cut(s)	97, 292, 486
Sau3AI	GATC	7 cut(s)	25, 217, 229, 426, 538, 574, 607
Sau96I	GGNCC	1 cut(s)	533
SchI	GAGTC	1 cut(s)	454
ScrFI	CCNGG	2 cut(s)	273, 274
SduI	GDGCHC	3 cut(s)	394, 502, 554
SetI	ASST	9 cut(s)	172, 199, 216, 373, 394, 445, 487, 554, 615
SfcI	CTRYAG	1 cut(s)	136
SinI	GGWCC	1 cut(s)	533
SmaI	CCCGGG	1 cut(s)	274
Sse9I	AATT	2 cut(s)	316, 493
SsiI	CCGC	3 cut(s)	305, 399, 627
SspMI	CTAG	1 cut(s)	555
SstI	GAGCTC	2 cut(s)	394, 554
StyD4I	CCNGG	2 cut(s)	271, 272
StyI	CCWWGG	2 cut(s)	300, 653
TaaI	ACNGT	4 cut(s)	17, 121, 410, 504
TaiI	ACGT	1 cut(s)	216
TaqI	TCGA	2 cut(s)	216, 684
TasI	AATT	2 cut(s)	316, 493
TatI	WGTACW	3 cut(s)	333, 479, 519
TfiI	GAWTC	1 cut(s)	352
Tru1I	TTAA	3 cut(s)	164, 363, 438
Tru9I	TTAA	3 cut(s)	164, 363, 438
TscAI	CASTG	4 cut(s)	59, 140, 354, 610
TseFI	GTSAC	3 cut(s)	115, 131, 601
TseI	GCWGC	3 cut(s)	96, 291, 485
Tsp45I	GTSAC	3 cut(s)	115, 131, 601
TspDTI	ATGAA	2 cut(s)	176, 342
TspMI	CCCGGG	1 cut(s)	272
TspRI	CASTG	4 cut(s)	59, 140, 354, 610
Van91I	CCANNNNNTGG	1 cut(s)	542
VpaK11BI	GGWCC	1 cut(s)	533
XceI	RCATGY	1 cut(s)	163
XcmI	CCANNNNNNNNNTGG	1 cut(s)	76
XmaI	CCCGGG	1 cut(s)	272
XspI	CTAG	1 cut(s)	555

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