Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000007

Orthogroup ID

OG0003905

Physical Location & Seq

Genomic Coordinates Forward (+)

23914738 .. 23915376

Gene Structure 639 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug07G0255800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 639 bp

ATGGCAGATGAAGAAAGCCAGGTCTGGGCCTCAACCCCCGGCAAACTACGCAATGGAAGAAACGAAGAGAATTCCATGTTCAAAGCCCTACGCAGAGAAAGAACCGACAAGTCCTTCTTGTTTATTTTCTTTGGGATTCTGGTCGTCCTCTGCATAGCAGTCTTGGTTGTCGCACTGTTTGTTCTTCGGGTCAAAACTCCTGAGGTCAAACTGAGATCCGTAAAGGTGAAGAGTCTCAAGTACTCATTTTCGCCGCCTTCGTTTAATACAACTCTATCTGCGCAGATGACTGTAAAGAACCCCAACTTCGGCTACTACGAGTTCGAGCCGAGCACGGTGAGCTTCTTGTATGGTGGGAGCAGAGTTGGGGCTTCAAGATTGGGGAAGGGGGAAGTCAAATTGTTAACGACGGCGACGTTGAGTTTTGGCATGGATGTGAGATCCAACAGGCTACCGGAGGGTCGTAATACTTTGATCAGTGATCTTAACTCCGGAATTTTGAAGTTGAGCGCTTCTGGAAGTGTGAGTGGCAGAATGATATTATGGAAGATTGTAAACCAGAGCAAGACCAGTAACATTGACTGCAGCATGACGCTTGTTTTAAGGACTAAGACGATCAATGATTTGGTATGCAGATAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000184 GO:0000956 GO:0001101 GO:0003674 GO:0003676 GO:0003723 GO:0003729 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005730 GO:0006139 GO:0006401 GO:0006402 GO:0006725 GO:0006807 GO:0006950 GO:0006952 GO:0007154 GO:0007165 GO:0008150 GO:0008152 GO:0009056 GO:0009057 GO:0009314 GO:0009416 GO:0009605 GO:0009607 GO:0009611 GO:0009617 GO:0009628 GO:0009648 GO:0009719 GO:0009725 GO:0009751 GO:0009753 GO:0009755 GO:0009863 GO:0009867 GO:0009892 GO:0009987 GO:0010033 GO:0010468 GO:0010605 GO:0010629 GO:0014070 GO:0016070 GO:0016071 GO:0019222 GO:0019439 GO:0023052 GO:0031974 GO:0031981 GO:0032870 GO:0034641 GO:0034655 GO:0035690 GO:0042221 GO:0042493 GO:0042742 GO:0043170 GO:0043207 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044237 GO:0044238 GO:0044248 GO:0044260 GO:0044265 GO:0044270 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0046483 GO:0046677 GO:0046700 GO:0048519 GO:0048571 GO:0050789 GO:0050794 GO:0050896 GO:0051704 GO:0051707 GO:0051716 GO:0060255 GO:0065007 GO:0070013 GO:0070887 GO:0071229 GO:0071236 GO:0071310 GO:0071395 GO:0071407 GO:0071446 GO:0071495 GO:0071704 GO:0090304 GO:0097159 GO:0098542 GO:1901360 GO:1901361 GO:1901363 GO:1901575 GO:1901700 GO:1901701

KEGG Pathways

Metabolic & Signaling

ko03013 ko03015 map03013 map03015

Pfam Domains

Protein Families

Smg4_UPF3

Protein Analysis

212

Amino Acids

23.55

Weight (kDa)

10.05

Isoelectric Point (pI)

33.5

Instability Index

Protein Domains (Pfam)

No Pfam domains detected for this protein.

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: OG0003905)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G33980 AT1G33980
fragaria_vesca	FvH4_5g32510 FvH4_5g32510 FvH4_5g32510 FvH4_5g32510 FvH4_5g32510 FvH4_5g32510 FvH4_5g32510 FvH4_5g32510 FvH4_5g32510 FvH4_5g32510 FvH4_5g32510
malus_domestica	MD08G1216600.v1.1 MD15G1403800.v1.1
prunus_persica	Prupe.1G550000_v2.0.a1
pyrus_communis	pycom08g18750 pycom15g36110
rosa_chinensis	RchiOBHm_Chr6g0271031 RchiOBHm_Chr7g0229091
rosa_laevigata	RLG00000001531
rosa_multiflora	Rmu_sc0000271.1_g000018
rosa_roxburghii	Rroxscaffold_3G00230720
rosa_rugosa	Rorug07G0255600 Rorug07G0255700 Rorug07G0255700 Rorug07G0255800 Rorug07G0255900 Rorug07G0256000
rosa_samantha	Rh7AG406900 Rh7BG386300 Rh7CG424600 Rh7DG400900
rosa_wichuraiana	Rw7G033780

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	282
AccIII	TCCGGA	1 cut(s)	491
AciI	CCGC	1 cut(s)	254
AclWI	GGATC	2 cut(s)	210, 435
AcsI	RAATTY	2 cut(s)	70, 495
AfaI	GTAC	1 cut(s)	242
AfeI	AGCGCT	1 cut(s)	511
AfiI	CCNNNNNNNGG	2 cut(s)	25, 308
AgsI	TTSAA	3 cut(s)	82, 375, 502
AjnI	CCWGG	1 cut(s)	18
AluBI	AGCT	1 cut(s)	342
AluI	AGCT	1 cut(s)	342
Alw21I	GWGCWC	1 cut(s)	335
Alw26I	GTCTC	1 cut(s)	239
AlwI	GGATC	2 cut(s)	210, 435
Aor13HI	TCCGGA	1 cut(s)	491
Aor51HI	AGCGCT	1 cut(s)	511
AoxI	GGCC	1 cut(s)	27
ApeKI	GCWGC	1 cut(s)	585
ApoI	RAATTY	2 cut(s)	70, 495
AspLEI	GCGC	2 cut(s)	283, 512
AspS9I	GGNCC	1 cut(s)	27
AsuC2I	CCSGG	1 cut(s)	39
AsuHPI	GGTGA	2 cut(s)	238, 349
AxyI	CCTNAGG	1 cut(s)	201
Bbv12I	GWGCWC	1 cut(s)	335
BbvI	GCAGC	1 cut(s)	597
BceAI	ACGGC	1 cut(s)	426
BciT130I	CCWGG	1 cut(s)	20
BclI	TGATCA	1 cut(s)	474
BcnI	CCSGG	1 cut(s)	39
BcoDI	GTCTC	1 cut(s)	239
BfmI	CTRYAG	1 cut(s)	583
BfoI	RGCGCY	1 cut(s)	513
BisI	GCNGC	2 cut(s)	254, 586
BlsI	GCNGC	2 cut(s)	255, 587
BmcAI	AGTACT	1 cut(s)	242
Bme1390I	CCNGG	2 cut(s)	20, 39
BmgT120I	GGNCC	1 cut(s)	27
BmrFI	CCNGG	2 cut(s)	20, 39
BpuEI	CTTGAG	1 cut(s)	221
BpuMI	CCSGG	1 cut(s)	39
BsaJI	CCNNGG	1 cut(s)	37
BsaWI	WCCGGW	2 cut(s)	454, 491
Bsc4I	CCNNNNNNNGG	2 cut(s)	25, 308
Bse1I	ACTGG	1 cut(s)	570
Bse21I	CCTNAGG	1 cut(s)	201
Bse3DI	GCAATG	1 cut(s)	58
BseAI	TCCGGA	1 cut(s)	491
BseBI	CCWGG	1 cut(s)	20
BseDI	CCNNGG	1 cut(s)	37
BseGI	GGATG	1 cut(s)	439
BseLI	CCNNNNNNNGG	2 cut(s)	25, 308
BseMI	GCAATG	1 cut(s)	58
BseMII	CTCAG	2 cut(s)	192, 203
BseNI	ACTGG	1 cut(s)	570
BseXI	GCAGC	1 cut(s)	597
BshFI	GGCC	1 cut(s)	29
BsiHKAI	GWGCWC	1 cut(s)	335
BsiSI	CCGG	3 cut(s)	39, 455, 492
BslI	CCNNNNNNNGG	2 cut(s)	25, 308
BsmAI	GTCTC	1 cut(s)	239
BsnI	GGCC	1 cut(s)	29
Bsp1286I	GDGCHC	1 cut(s)	335
Bsp13I	TCCGGA	1 cut(s)	491
Bsp143I	GATC	5 cut(s)	215, 440, 474, 481, 615
BspACI	CCGC	1 cut(s)	254
BspANI	GGCC	1 cut(s)	29
BspCNI	CTCAG	2 cut(s)	193, 204
BspEI	TCCGGA	1 cut(s)	491
BspMAI	CTGCAG	1 cut(s)	587
BspPI	GGATC	2 cut(s)	210, 435
BsrDI	GCAATG	1 cut(s)	58
BsrI	ACTGG	1 cut(s)	570
BssECI	CCNNGG	1 cut(s)	37
BssMI	GATC	5 cut(s)	215, 440, 474, 481, 615
Bst2UI	CCWGG	1 cut(s)	20
Bst4CI	ACNGT	3 cut(s)	177, 292, 337
Bst6I	CTCTTC	2 cut(s)	60, 224
BstDEI	CTNAG	3 cut(s)	201, 212, 609
BstF5I	GGATG	1 cut(s)	439
BstH2I	RGCGCY	1 cut(s)	513
BstHHI	GCGC	2 cut(s)	283, 512
BstKTI	GATC	5 cut(s)	218, 443, 477, 484, 618
BstMAI	GTCTC	1 cut(s)	239
BstMBI	GATC	5 cut(s)	215, 440, 474, 481, 615
BstMWI	GCNNNNNNNGC	2 cut(s)	48, 339
BstNI	CCWGG	1 cut(s)	20
BstSCI	CCNGG	2 cut(s)	18, 37
BstSFI	CTRYAG	1 cut(s)	583
BstV1I	GCAGC	1 cut(s)	597
BstX2I	RGATCY	2 cut(s)	215, 440
BstYI	RGATCY	2 cut(s)	215, 440
Bsu36I	CCTNAGG	1 cut(s)	201
BsuRI	GGCC	1 cut(s)	29
BtsCI	GGATG	1 cut(s)	439
BtsIMutI	CAGTG	2 cut(s)	173, 484
CfoI	GCGC	2 cut(s)	283, 512
Cfr13I	GGNCC	1 cut(s)	27
CseI	GACGC	1 cut(s)	601
Csp6I	GTAC	1 cut(s)	241
CviAII	CATG	3 cut(s)	76, 430, 589
CviJI	RGCY	8 cut(s)	18, 29, 86, 312, 328, 342, 371, 451
CviKI_1	RGCY	8 cut(s)	18, 29, 86, 312, 328, 342, 371, 451
CviQI	GTAC	1 cut(s)	241
DdeI	CTNAG	3 cut(s)	201, 212, 609
DpnI	GATC	5 cut(s)	217, 442, 476, 483, 617
DpnII	GATC	5 cut(s)	215, 440, 474, 481, 615
Eam1104I	CTCTTC	2 cut(s)	60, 224
EarI	CTCTTC	2 cut(s)	60, 224
Eco47III	AGCGCT	1 cut(s)	511
Eco81I	CCTNAGG	1 cut(s)	201
EcoRI	GAATTC	1 cut(s)	70
EcoRII	CCWGG	1 cut(s)	18
FaeI	CATG	3 cut(s)	79, 433, 592
FaiI	YATR	7 cut(s)	77, 155, 351, 431, 544, 590, 631
FalI	AAGNNNNNCTT	2 cut(s)	101, 133
FatI	CATG	3 cut(s)	75, 429, 588
FbaI	TGATCA	1 cut(s)	474
Fnu4HI	GCNGC	2 cut(s)	254, 586
FokI	GGATG	1 cut(s)	446
Fsp4HI	GCNGC	2 cut(s)	254, 586
FspI	TGCGCA	1 cut(s)	282
GlaI	GCGC	2 cut(s)	282, 511
GluI	GCNGC	2 cut(s)	254, 586
HaeII	RGCGCY	1 cut(s)	513
HaeIII	GGCC	1 cut(s)	29
HapII	CCGG	3 cut(s)	39, 455, 492
HgaI	GACGC	1 cut(s)	601
HhaI	GCGC	2 cut(s)	283, 512
Hin1II	CATG	3 cut(s)	79, 433, 592
Hin6I	GCGC	2 cut(s)	281, 510
HinP1I	GCGC	2 cut(s)	281, 510
HincII	GTYRAC	1 cut(s)	405
HindII	GTYRAC	1 cut(s)	405
HinfI	GANTC	2 cut(s)	136, 232
HpaI	GTTAAC	1 cut(s)	405
HpaII	CCGG	3 cut(s)	39, 455, 492
HphI	GGTGA	2 cut(s)	238, 349
Hpy166II	GTNNAC	2 cut(s)	405, 556
Hpy188III	TCNNGA	4 cut(s)	200, 375, 492, 516
Hpy8I	GTNNAC	2 cut(s)	405, 556
Hpy99I	CGWCG	2 cut(s)	412, 418
HpyAV	CCTTC	3 cut(s)	124, 267, 379
HpyCH4III	ACNGT	3 cut(s)	177, 292, 337
HpyCH4IV	ACGT	1 cut(s)	416
HpyCH4V	TGCA	3 cut(s)	153, 585, 633
HpyF10VI	GCNNNNNNNGC	2 cut(s)	48, 339
HpyF3I	CTNAG	3 cut(s)	201, 212, 609
HpySE526I	ACGT	1 cut(s)	416
Hsp92II	CATG	3 cut(s)	79, 433, 592
HspAI	GCGC	2 cut(s)	281, 510
Kpn2I	TCCGGA	1 cut(s)	491
Ksp22I	TGATCA	1 cut(s)	474
KspAI	GTTAAC	1 cut(s)	405
Kzo9I	GATC	5 cut(s)	215, 440, 474, 481, 615
LmnI	GCTCC	1 cut(s)	357
Lsp1109I	GCAGC	1 cut(s)	597
MaeII	ACGT	1 cut(s)	416
MaeIII	GTNAC	1 cut(s)	572
MalI	GATC	5 cut(s)	217, 442, 476, 483, 617
MboI	GATC	5 cut(s)	215, 440, 474, 481, 615
MboII	GAAGA	6 cut(s)	23, 69, 77, 176, 241, 559
MflI	RGATCY	2 cut(s)	215, 440
MhlI	GDGCHC	1 cut(s)	335
MluCI	AATT	3 cut(s)	70, 398, 495
MlyI	GAGTC	1 cut(s)	241
MmeI	TCCRAC	1 cut(s)	468
MnlI	CCTC	4 cut(s)	40, 158, 196, 451
MroI	TCCGGA	1 cut(s)	491
MseI	TTAA	4 cut(s)	264, 404, 486, 602
MslI	CAYNNNNRTG	1 cut(s)	434
MspI	CCGG	3 cut(s)	39, 455, 492
MspR9I	CCNGG	2 cut(s)	20, 39
MvaI	CCWGG	1 cut(s)	20
MwoI	GCNNNNNNNGC	2 cut(s)	48, 339
NciI	CCSGG	1 cut(s)	39
NdeII	GATC	5 cut(s)	215, 440, 474, 481, 615
NlaIII	CATG	3 cut(s)	79, 433, 592
NmeAIII	GCCGAG	1 cut(s)	354
NsbI	TGCGCA	1 cut(s)	282
PcsI	WCGNNNNNNNCGW	3 cut(s)	257, 315, 413
PfeI	GAWTC	1 cut(s)	136
PkrI	GCNGC	2 cut(s)	255, 587
PleI	GAGTC	1 cut(s)	240
PpsI	GAGTC	1 cut(s)	240
Psp6I	CCWGG	1 cut(s)	18
PspGI	CCWGG	1 cut(s)	18
PspPI	GGNCC	1 cut(s)	27
PstI	CTGCAG	1 cut(s)	587
PsuI	RGATCY	2 cut(s)	215, 440
RsaI	GTAC	1 cut(s)	242
RsaNI	GTAC	1 cut(s)	241
RseI	CAYNNNNRTG	1 cut(s)	434
SaqAI	TTAA	4 cut(s)	264, 404, 486, 602
SatI	GCNGC	2 cut(s)	254, 586
Sau3AI	GATC	5 cut(s)	215, 440, 474, 481, 615
Sau96I	GGNCC	1 cut(s)	27
ScaI	AGTACT	1 cut(s)	242
SchI	GAGTC	1 cut(s)	241
ScrFI	CCNGG	2 cut(s)	20, 39
SduI	GDGCHC	1 cut(s)	335
SetI	ASST	5 cut(s)	24, 207, 228, 344, 419
SfcI	CTRYAG	1 cut(s)	583
SmiMI	CAYNNNNRTG	1 cut(s)	434
SmlI	CTYRAG	1 cut(s)	236
SmoI	CTYRAG	1 cut(s)	236
Sse9I	AATT	3 cut(s)	70, 398, 495
SsiI	CCGC	1 cut(s)	254
StyD4I	CCNGG	2 cut(s)	18, 37
TaaI	ACNGT	3 cut(s)	177, 292, 337
TaiI	ACGT	1 cut(s)	419
TaqI	TCGA	1 cut(s)	324
TasI	AATT	3 cut(s)	70, 398, 495
TatI	WGTACW	1 cut(s)	240
TauI	GCSGC	1 cut(s)	256
TfiI	GAWTC	1 cut(s)	136
Tru1I	TTAA	4 cut(s)	264, 404, 486, 602
Tru9I	TTAA	4 cut(s)	264, 404, 486, 602
TscAI	CASTG	2 cut(s)	180, 484
TseI	GCWGC	1 cut(s)	585
TspDTI	ATGAA	1 cut(s)	24
TspGWI	ACGGA	1 cut(s)	208
TspRI	CASTG	2 cut(s)	180, 484
XapI	RAATTY	2 cut(s)	70, 495
ZrmI	AGTACT	1 cut(s)	242

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