Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000004

Orthogroup ID

OG0013491

Physical Location & Seq

Genomic Coordinates Forward (+)

57863288 .. 57864991

Gene Structure 1704 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug04G0417400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 684 bp

ATGACGACGCTGAACCGTCTCTTTGATCTACCTGAGCAGATTTGCTATGTCCAGTGTGGTTTCTGCGCCACCATATTACTGGTGAGTGTGCCATGCAGCAGTTTGTCAAGATTGGTCACAGTCAGATGTGGTCACTGCAGTTGCCTCCTATCAGTCAACATGTTAAAAGCTTCCTTTCTCCCTTTTCATCACTTAGCTTCACTTGGCCAAGACGTCGATCAGGAAAAAGATCAAGAAATCTGTGTGGAAGAAGTGAAGTATCCCGGGTTGGGCGATTTGCGCAGCCCATCCATGGCGGTTTCTAATAATTCTGAAAATGAAGAGTACACAAACACAATCACACTGAATCACATTGTTAACAAACCTCCAGAGAAGAGACAACGAGCTCCATCCGCTTATAACCGTTTTATCAAAGAAGAGATCCAGAGGCTTAAAGCTGAAAATCCAAGCATGACTCACAAGGAAGCCTTCAGTACAGCTGCAAAGAATTGGGCACAGTTCCCTCCAGTTCAGTACAAAATAGATGGTCCAGATCATGGAGAGAGCTCTAGCCAACTGATTAGAGAGGATCAAAATGTTACATGGAACTCTGATGTCACTGATCAGGTTCAGGAAGATGGCGGAGTTTTTCGTGAGAGAAAAGCCCCAAGGCAGTCCATATGGGCAAGGACACCAATCGAGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0004842 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0006464 GO:0006807 GO:0007275 GO:0008150 GO:0008152 GO:0009314 GO:0009416 GO:0009628 GO:0009639 GO:0009640 GO:0009791 GO:0009987 GO:0016567 GO:0016604 GO:0016607 GO:0016740 GO:0019538 GO:0019787 GO:0031647 GO:0031648 GO:0031974 GO:0031981 GO:0032446 GO:0032501 GO:0032502 GO:0036211 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043412 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0048856 GO:0050896 GO:0061630 GO:0061659 GO:0065007 GO:0065008 GO:0070013 GO:0070647 GO:0071704 GO:0140096 GO:1901564

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Rtf2 zf-NOSIP zf-RING_UBOX

Protein Analysis

227

Amino Acids

25.67

Weight (kDa)

5.73

Isoelectric Point (pI)

50.2

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
YABBY_N	PF24868	10 - 64	1.7e-25	YABBY, N-terminal
YABBY	PF04690	110 - 173	1.1e-36	YABBY protein, C-terminal
Ccdc124	PF06244	116 - 167	4.1e-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

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: OG0013491)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G61620
fragaria_vesca	FvH4_3g03660
malus_domestica	MD05G1329000.v1.1 MD10G1305900.v1.1
prunus_persica	Prupe.4G033800_v2.0.a1
pyrus_communis	pycom05g30230 pycom10g25820
rosa_chinensis	RchiOBHm_Chr5g0005701
rosa_laevigata	RLG00000031319
rosa_multiflora	Rmu_sc0010248.1_g000004
rosa_roxburghii	Rroxscaffold_1G00070140
rosa_rugosa	Rorug04G0417400
rosa_samantha	Rh5AG045000 Rh5BG043700 Rh5CG052500 Rh5DG043500
rosa_wichuraiana	Rw0G008370 Rw5G004520

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	399
AatII	GACGTC	1 cut(s)	216
Acc16I	TGCGCA	1 cut(s)	281
AccB7I	CCANNNNNTGG	1 cut(s)	536
AciI	CCGC	3 cut(s)	296, 393, 621
AclWI	GGATC	2 cut(s)	415, 576
AcoI	YGGCCR	1 cut(s)	205
AcuI	CTGAAG	1 cut(s)	454
AcyI	GRCGYC	1 cut(s)	213
AfaI	GTAC	3 cut(s)	326, 475, 515
AfiI	CCNNNNNNNGG	3 cut(s)	269, 292, 536
AflIII	ACRYGT	1 cut(s)	159
AluBI	AGCT	6 cut(s)	170, 197, 386, 437, 479, 546
AluI	AGCT	6 cut(s)	170, 197, 386, 437, 479, 546
Alw21I	GWGCWC	2 cut(s)	388, 548
Alw26I	GTCTC	2 cut(s)	23, 370
AlwI	GGATC	2 cut(s)	415, 576
Ama87I	CYCGRG	1 cut(s)	263
AoxI	GGCC	1 cut(s)	205
ApeKI	GCWGC	3 cut(s)	96, 282, 479
AspLEI	GCGC	2 cut(s)	68, 282
AspS9I	GGNCC	1 cut(s)	527
AsuC2I	CCSGG	2 cut(s)	264, 265
AsuHPI	GGTGA	1 cut(s)	94
AvaI	CYCGRG	1 cut(s)	263
AvaII	GGWCC	1 cut(s)	527
BaeGI	GKGCMC	1 cut(s)	496
BalI	TGGCCA	1 cut(s)	207
BanII	GRGCYC	2 cut(s)	388, 548
Bbv12I	GWGCWC	2 cut(s)	388, 548
BbvI	GCAGC	3 cut(s)	108, 294, 466
BccI	CCATC	4 cut(s)	295, 397, 518, 611
BciVI	GTATCC	1 cut(s)	270
BclI	TGATCA	1 cut(s)	601
BcnI	CCSGG	2 cut(s)	264, 265
BcoDI	GTCTC	2 cut(s)	23, 370
BfaI	CTAG	1 cut(s)	549
BfmI	CTRYAG	1 cut(s)	136
BfuI	GTATCC	1 cut(s)	270
BisI	GCNGC	3 cut(s)	97, 283, 480
BlsI	GCNGC	3 cut(s)	98, 284, 481
Bme1390I	CCNGG	2 cut(s)	264, 265
Bme18I	GGWCC	1 cut(s)	527
BmeT110I	CYCGRG	1 cut(s)	263
BmgT120I	GGNCC	1 cut(s)	527
BmrFI	CCNGG	2 cut(s)	264, 265
BpmI	CTGGAG	2 cut(s)	351, 489
Bpu10I	CCTNAGC	1 cut(s)	33
BpuMI	CCSGG	2 cut(s)	264, 265
BsaHI	GRCGYC	1 cut(s)	213
BsaJI	CCNNGG	3 cut(s)	263, 291, 647
Bsc4I	CCNNNNNNNGG	3 cut(s)	269, 292, 536
Bse1I	ACTGG	3 cut(s)	52, 84, 506
BseDI	CCNNGG	3 cut(s)	263, 291, 647
BseGI	GGATG	2 cut(s)	287, 389
BseLI	CCNNNNNNNGG	3 cut(s)	269, 292, 536
BseMII	CTCAG	1 cut(s)	24
BseNI	ACTGG	3 cut(s)	52, 84, 506
BseSI	GKGCMC	1 cut(s)	496
BseXI	GCAGC	3 cut(s)	108, 294, 466
BshFI	GGCC	1 cut(s)	207
BsiHKAI	GWGCWC	2 cut(s)	388, 548
BsiHKCI	CYCGRG	1 cut(s)	263
BsiSI	CCGG	1 cut(s)	264
BslI	CCNNNNNNNGG	3 cut(s)	269, 292, 536
BsmAI	GTCTC	2 cut(s)	23, 370
BsmBI	CGTCTC	1 cut(s)	23
BsnI	GGCC	1 cut(s)	207
BsoBI	CYCGRG	1 cut(s)	263
Bsp1286I	GDGCHC	3 cut(s)	388, 496, 548
Bsp143I	GATC	7 cut(s)	25, 217, 229, 420, 532, 568, 601
Bsp19I	CCATGG	1 cut(s)	291
BspACI	CCGC	3 cut(s)	296, 393, 621
BspANI	GGCC	1 cut(s)	207
BspCNI	CTCAG	1 cut(s)	25
BspMAI	CTGCAG	1 cut(s)	140
BspPI	GGATC	2 cut(s)	415, 576
BsrI	ACTGG	3 cut(s)	52, 84, 506
BssECI	CCNNGG	3 cut(s)	263, 291, 647
BssMI	GATC	7 cut(s)	25, 217, 229, 420, 532, 568, 601
BssNI	GRCGYC	1 cut(s)	213
BssT1I	CCWWGG	2 cut(s)	291, 647
Bst4CI	ACNGT	4 cut(s)	17, 121, 404, 498
Bst6I	CTCTTC	3 cut(s)	315, 368, 411
BstACI	GRCGYC	1 cut(s)	213
BstDEI	CTNAG	2 cut(s)	33, 193
BstDSI	CCRYGG	1 cut(s)	291
BstF5I	GGATG	2 cut(s)	287, 389
BstHHI	GCGC	2 cut(s)	68, 282
BstKTI	GATC	7 cut(s)	28, 220, 232, 423, 535, 571, 604
BstMAI	GTCTC	2 cut(s)	23, 370
BstMBI	GATC	7 cut(s)	25, 217, 229, 420, 532, 568, 601
BstMWI	GCNNNNNNNGC	2 cut(s)	279, 392
BstNSI	RCATGY	1 cut(s)	163
BstSCI	CCNGG	2 cut(s)	262, 263
BstSFI	CTRYAG	1 cut(s)	136
BstSLI	GKGCMC	1 cut(s)	496
BstV1I	GCAGC	3 cut(s)	108, 294, 466
BstX2I	RGATCY	1 cut(s)	420
BstXI	CCANNNNNNTGG	1 cut(s)	79
BstYI	RGATCY	1 cut(s)	420
BsuI	GTATCC	1 cut(s)	270
BsuRI	GGCC	1 cut(s)	207
BtgI	CCRYGG	1 cut(s)	291
BtsCI	GGATG	2 cut(s)	287, 389
BtsI	GCAGTG	1 cut(s)	133
BtsIMutI	CAGTG	4 cut(s)	59, 133, 341, 597
CfoI	GCGC	2 cut(s)	68, 282
Cfr13I	GGNCC	1 cut(s)	527
Cfr9I	CCCGGG	1 cut(s)	263
CseI	GACGC	1 cut(s)	16
Csp6I	GTAC	3 cut(s)	325, 474, 514
CviAII	CATG	6 cut(s)	93, 160, 292, 451, 536, 582
CviQI	GTAC	3 cut(s)	325, 474, 514
DdeI	CTNAG	2 cut(s)	33, 193
DpnI	GATC	7 cut(s)	27, 219, 231, 422, 534, 570, 603
DpnII	GATC	7 cut(s)	25, 217, 229, 420, 532, 568, 601
EaeI	YGGCCR	1 cut(s)	205
Eam1104I	CTCTTC	3 cut(s)	315, 368, 411
EarI	CTCTTC	3 cut(s)	315, 368, 411
EciI	GGCGGA	1 cut(s)	636
Ecl136II	GAGCTC	2 cut(s)	386, 546
Eco130I	CCWWGG	2 cut(s)	291, 647
Eco24I	GRGCYC	2 cut(s)	388, 548
Eco47I	GGWCC	1 cut(s)	527
Eco53kI	GAGCTC	2 cut(s)	386, 546
Eco57I	CTGAAG	1 cut(s)	454
Eco88I	CYCGRG	1 cut(s)	263
EcoICRI	GAGCTC	2 cut(s)	386, 546
EcoT14I	CCWWGG	2 cut(s)	291, 647
EcoT38I	GRGCYC	2 cut(s)	388, 548
ErhI	CCWWGG	2 cut(s)	291, 647
Esp3I	CGTCTC	1 cut(s)	23
FaeI	CATG	6 cut(s)	96, 163, 295, 454, 539, 585
FalI	AAGNNNNNCTT	2 cut(s)	452, 484
FatI	CATG	6 cut(s)	92, 159, 291, 450, 535, 581
FauNDI	CATATG	1 cut(s)	659
FbaI	TGATCA	1 cut(s)	601
Fnu4HI	GCNGC	3 cut(s)	97, 283, 480
FokI	GGATG	2 cut(s)	274, 376
FriOI	GRGCYC	2 cut(s)	388, 548
Fsp4HI	GCNGC	3 cut(s)	97, 283, 480
FspBI	CTAG	1 cut(s)	549
FspI	TGCGCA	1 cut(s)	281
GlaI	GCGC	2 cut(s)	67, 281
GluI	GCNGC	3 cut(s)	97, 283, 480
GsuI	CTGGAG	2 cut(s)	351, 489
HaeIII	GGCC	1 cut(s)	207
HapII	CCGG	1 cut(s)	264
HgaI	GACGC	1 cut(s)	16
HhaI	GCGC	2 cut(s)	68, 282
Hin1I	GRCGYC	1 cut(s)	213
Hin1II	CATG	6 cut(s)	96, 163, 295, 454, 539, 585
Hin6I	GCGC	2 cut(s)	66, 280
HinP1I	GCGC	2 cut(s)	66, 280
HincII	GTYRAC	2 cut(s)	157, 358
HindII	GTYRAC	2 cut(s)	157, 358
HindIII	AAGCTT	1 cut(s)	168
HinfI	GANTC	2 cut(s)	346, 454
HpaI	GTTAAC	1 cut(s)	358
HpaII	CCGG	1 cut(s)	264
HphI	GGTGA	1 cut(s)	94
Hpy166II	GTNNAC	3 cut(s)	157, 327, 358
Hpy188I	TCNGA	3 cut(s)	125, 313, 592
Hpy188III	TCNNGA	8 cut(s)	108, 221, 233, 368, 424, 530, 611, 632
Hpy8I	GTNNAC	3 cut(s)	157, 327, 358
Hpy99I	CGWCG	2 cut(s)	10, 218
HpyAV	CCTTC	1 cut(s)	478
HpyCH4III	ACNGT	4 cut(s)	17, 121, 404, 498
HpyCH4IV	ACGT	1 cut(s)	213
HpyCH4V	TGCA	3 cut(s)	96, 138, 482
HpyF10VI	GCNNNNNNNGC	2 cut(s)	279, 392
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, 295, 454, 539, 585
HspAI	GCGC	2 cut(s)	66, 280
Ksp22I	TGATCA	1 cut(s)	601
KspAI	GTTAAC	1 cut(s)	358
Kzo9I	GATC	7 cut(s)	25, 217, 229, 420, 532, 568, 601
LmnI	GCTCC	1 cut(s)	391
Lsp1109I	GCAGC	3 cut(s)	108, 294, 466
MaeI	CTAG	1 cut(s)	549
MaeII	ACGT	1 cut(s)	213
MaeIII	GTNAC	4 cut(s)	115, 131, 577, 595
MalI	GATC	7 cut(s)	27, 219, 231, 422, 534, 570, 603
MboI	GATC	7 cut(s)	25, 217, 229, 420, 532, 568, 601
MboII	GAAGA	5 cut(s)	260, 332, 385, 428, 626
MflI	RGATCY	1 cut(s)	420
MhlI	GDGCHC	3 cut(s)	388, 496, 548
MlsI	TGGCCA	1 cut(s)	207
MluCI	AATT	2 cut(s)	307, 487
MluNI	TGGCCA	1 cut(s)	207
MlyI	GAGTC	1 cut(s)	448
MnlI	CCTC	5 cut(s)	155, 375, 420, 513, 559
Mox20I	TGGCCA	1 cut(s)	207
MscI	TGGCCA	1 cut(s)	207
MseI	TTAA	3 cut(s)	164, 357, 432
Msp20I	TGGCCA	1 cut(s)	207
MspA1I	CMGCKG	1 cut(s)	479
MspI	CCGG	1 cut(s)	264
MspR9I	CCNGG	2 cut(s)	264, 265
MwoI	GCNNNNNNNGC	2 cut(s)	279, 392
NciI	CCSGG	2 cut(s)	264, 265
NcoI	CCATGG	1 cut(s)	291
NdeI	CATATG	1 cut(s)	659
NdeII	GATC	7 cut(s)	25, 217, 229, 420, 532, 568, 601
NlaIII	CATG	6 cut(s)	96, 163, 295, 454, 539, 585
NmuCI	GTSAC	3 cut(s)	115, 131, 595
NsbI	TGCGCA	1 cut(s)	281
NspI	RCATGY	1 cut(s)	163
PciI	ACATGT	1 cut(s)	159
PfeI	GAWTC	1 cut(s)	346
PflMI	CCANNNNNTGG	1 cut(s)	536
PkrI	GCNGC	3 cut(s)	98, 284, 481
PleI	GAGTC	1 cut(s)	448
PpsI	GAGTC	1 cut(s)	448
PscI	ACATGT	1 cut(s)	159
PsiI	TTATAA	1 cut(s)	399
Psp124BI	GAGCTC	2 cut(s)	388, 548
PspPI	GGNCC	1 cut(s)	527
PstI	CTGCAG	1 cut(s)	140
PsuI	RGATCY	1 cut(s)	420
PvuII	CAGCTG	1 cut(s)	479
RsaI	GTAC	3 cut(s)	326, 475, 515
RsaNI	GTAC	3 cut(s)	325, 474, 514
SacI	GAGCTC	2 cut(s)	388, 548
SaqAI	TTAA	3 cut(s)	164, 357, 432
SatI	GCNGC	3 cut(s)	97, 283, 480
Sau3AI	GATC	7 cut(s)	25, 217, 229, 420, 532, 568, 601
Sau96I	GGNCC	1 cut(s)	527
SchI	GAGTC	1 cut(s)	448
ScrFI	CCNGG	2 cut(s)	264, 265
SduI	GDGCHC	3 cut(s)	388, 496, 548
SfcI	CTRYAG	1 cut(s)	136
SinI	GGWCC	1 cut(s)	527
SmaI	CCCGGG	1 cut(s)	265
Sse9I	AATT	2 cut(s)	307, 487
SsiI	CCGC	3 cut(s)	296, 393, 621
SspMI	CTAG	1 cut(s)	549
SstI	GAGCTC	2 cut(s)	388, 548
StyD4I	CCNGG	2 cut(s)	262, 263
StyI	CCWWGG	2 cut(s)	291, 647
TaaI	ACNGT	4 cut(s)	17, 121, 404, 498
TaiI	ACGT	1 cut(s)	216
TaqI	TCGA	2 cut(s)	216, 678
TasI	AATT	2 cut(s)	307, 487
TatI	WGTACW	3 cut(s)	324, 473, 513
TfiI	GAWTC	1 cut(s)	346
Tru1I	TTAA	3 cut(s)	164, 357, 432
Tru9I	TTAA	3 cut(s)	164, 357, 432
TscAI	CASTG	4 cut(s)	59, 140, 348, 604
TseFI	GTSAC	3 cut(s)	115, 131, 595
TseI	GCWGC	3 cut(s)	96, 282, 479
Tsp45I	GTSAC	3 cut(s)	115, 131, 595
TspDTI	ATGAA	2 cut(s)	176, 333
TspMI	CCCGGG	1 cut(s)	263
TspRI	CASTG	4 cut(s)	59, 140, 348, 604
Van91I	CCANNNNNTGG	1 cut(s)	536
VpaK11BI	GGWCC	1 cut(s)	527
XceI	RCATGY	1 cut(s)	163
XcmI	CCANNNNNNNNNTGG	1 cut(s)	76
XmaI	CCCGGG	1 cut(s)	263
XspI	CTAG	1 cut(s)	549
ZraI	GACGTC	1 cut(s)	214

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