Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000007

Orthogroup ID

OG0003905

Physical Location & Seq

Genomic Coordinates Forward (+)

23890334 .. 23894461

Gene Structure 4128 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug07G0255700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 951 bp

ATGGGGAAGAAAGAAGGAGACTTGTGGGACGATTCGGCTCTCATCAATGCTTTCGACAACGCCATGACTACCTACAAGAAAATGCATAGCAAGAAACCCACTCAAGGTCCAACCCAGGAAGACAAACTTGTGAGCAGTCCTGAAGAACAAGTCATTGTTGAGGCTGGTCAAACCCACGAGGCTAAAAGAGTACAAGGGGATGCAGATGACCTGACAAAAGATATGCAGAAGACTACTATGGAAATGGGAGAGACCGGTAATCTTTCAGAAGTTAAAGAAAATCATTGTTTAGATTCATATGTACCTGACCCCTATTCACAAGATGCTCAGGACATGCAAAACAACTATTCATATTCAGAAGGTGGAGAAGATTATACAAAGTTACTCAACCAGTATTATGAGATTGAGGAGAAAAGACAGAAGATTCTAGAGAAACTTCATCAATTTGGTGGTGGGAATTACCAGTATTCTGGTGAAGGTTCAGGTTCAGGTTCTGGTGTACAGTGGGGTACTGTTTCTAGTTACGAACAAAATGCAGTCCCTGCTAGCCAACCTTCTGATCCGGCTGTTGTGGGTTCATGTTGCCCGTACATGTGTCCGTGCTTGATGACTTCATGCACTGCATTTCCTGCTTGTCCGTTGGATTCGACATGTGCTGGTATAACTTGTACGGAAGCTTGTTTGGCAACAAGTAATGGGAAACCATTATCTCTTGAAGATAGAAAAATTGTCAAGACAGCATTTGGGACTGCAGAAAGAGCATTATCATCCATGAAAACAAATATTACTGTTGATTCTAAGAAAAAGGATGAGAAAGATGAATCAGAAATGGCTGAAACTACTGGCTCAGAGACAGATATCAGTGTGGTACTGAATGCATGGTATTCCGCAGGTTTCTACACCGGCAAGTATCTTGTGGAGCAATCCATTGCAAAGAAGCGACAAAGTTAA

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

316

Amino Acids

34.6

Weight (kDa)

4.72

Isoelectric Point (pI)

50.66

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SMN_G2-BD	PF20636	4 - 30	2e-13	Survival Motor Neuron, Gemin2-binding domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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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)
Acc36I	ACCTGC	1 cut(s)	881
AciI	CCGC	1 cut(s)	888
AclWI	GGATC	1 cut(s)	554
AcuI	CTGAAG	1 cut(s)	162
AfaI	GTAC	7 cut(s)	192, 303, 501, 511, 590, 670, 870
AfiI	CCNNNNNNNGG	1 cut(s)	104
AflIII	ACRYGT	2 cut(s)	591, 650
AgeI	ACCGGT	1 cut(s)	254
AgsI	TTSAA	1 cut(s)	716
AjnI	CCWGG	1 cut(s)	114
AluBI	AGCT	1 cut(s)	677
AluI	AGCT	1 cut(s)	677
Alw26I	GTCTC	3 cut(s)	12, 245, 845
AlwI	GGATC	1 cut(s)	554
AlwNI	CAGNNNCTG	2 cut(s)	494, 542
AsiGI	ACCGGT	1 cut(s)	254
AspS9I	GGNCC	1 cut(s)	107
AsuHPI	GGTGA	1 cut(s)	485
AsuNHI	GCTAGC	1 cut(s)	545
AvaII	GGWCC	1 cut(s)	107
BauI	CACGAG	1 cut(s)	176
BbsI	GAAGAC	2 cut(s)	126, 236
BcgI	CGANNNNNNTGC	2 cut(s)	515, 549
BciT130I	CCWGG	1 cut(s)	116
BcoDI	GTCTC	3 cut(s)	12, 245, 845
BfaI	CTAG	3 cut(s)	428, 519, 546
BfmI	CTRYAG	1 cut(s)	750
BfuAI	ACCTGC	1 cut(s)	881
Bme1390I	CCNGG	1 cut(s)	116
Bme18I	GGWCC	1 cut(s)	107
BmgT120I	GGNCC	1 cut(s)	107
BmrFI	CCNGG	1 cut(s)	116
BmsI	GCATC	2 cut(s)	190, 313
BmtI	GCTAGC	1 cut(s)	549
BpiI	GAAGAC	2 cut(s)	126, 236
Bpu10I	CCTNAGC	1 cut(s)	327
BpuEI	CTTGAG	1 cut(s)	87
BsaI	GGTCTC	1 cut(s)	245
BsaJI	CCNNGG	1 cut(s)	114
BsaWI	WCCGGW	1 cut(s)	254
Bsc4I	CCNNNNNNNGG	1 cut(s)	104
Bse118I	RCCGGY	2 cut(s)	254, 902
Bse1I	ACTGG	3 cut(s)	391, 463, 847
Bse3DI	GCAATG	1 cut(s)	927
BseBI	CCWGG	1 cut(s)	116
BseDI	CCNNGG	1 cut(s)	114
BseGI	GGATG	3 cut(s)	205, 767, 814
BseLI	CCNNNNNNNGG	1 cut(s)	104
BseMI	GCAATG	1 cut(s)	927
BseMII	CTCAG	2 cut(s)	341, 861
BseNI	ACTGG	3 cut(s)	391, 463, 847
BseRI	GAGGAG	1 cut(s)	422
BshTI	ACCGGT	1 cut(s)	254
BsiSI	CCGG	3 cut(s)	255, 563, 903
BslFI	GGGAC	3 cut(s)	41, 524, 760
BslI	CCNNNNNNNGG	1 cut(s)	104
BsmAI	GTCTC	3 cut(s)	12, 245, 845
BsmFI	GGGAC	3 cut(s)	41, 524, 760
BsmI	GAATGC	1 cut(s)	880
Bso31I	GGTCTC	1 cut(s)	245
Bsp1407I	TGTACA	1 cut(s)	499
Bsp143I	GATC	1 cut(s)	559
BspACI	CCGC	1 cut(s)	888
BspCNI	CTCAG	2 cut(s)	340, 860
BspMAI	CTGCAG	1 cut(s)	754
BspMI	ACCTGC	1 cut(s)	881
BspOI	GCTAGC	1 cut(s)	549
BspPI	GGATC	1 cut(s)	554
BspTNI	GGTCTC	1 cut(s)	245
BsrDI	GCAATG	1 cut(s)	927
BsrFI	RCCGGY	2 cut(s)	254, 902
BsrGI	TGTACA	1 cut(s)	499
BsrI	ACTGG	3 cut(s)	391, 463, 847
BssAI	RCCGGY	2 cut(s)	254, 902
BssECI	CCNNGG	1 cut(s)	114
BssMI	GATC	1 cut(s)	559
BssSI	CACGAG	1 cut(s)	176
Bst2BI	CACGAG	1 cut(s)	176
Bst2UI	CCWGG	1 cut(s)	116
Bst4CI	ACNGT	3 cut(s)	504, 514, 790
BstAPI	GCANNNNNTGC	2 cut(s)	542, 629
BstAUI	TGTACA	1 cut(s)	499
BstC8I	GCNNGC	1 cut(s)	547
BstDEI	CTNAG	3 cut(s)	327, 798, 847
BstF5I	GGATG	3 cut(s)	205, 767, 814
BstKTI	GATC	1 cut(s)	562
BstMAI	GTCTC	3 cut(s)	12, 245, 845
BstMBI	GATC	1 cut(s)	559
BstMWI	GCNNNNNNNGC	4 cut(s)	542, 629, 683, 758
BstNI	CCWGG	1 cut(s)	116
BstNSI	RCATGY	3 cut(s)	337, 595, 654
BstSCI	CCNGG	1 cut(s)	114
BstSFI	CTRYAG	1 cut(s)	750
BstV2I	GAAGAC	2 cut(s)	126, 236
BstXI	CCANNNNNNTGG	1 cut(s)	470
BtsCI	GGATG	3 cut(s)	205, 767, 814
BtsI	GCAGTG	1 cut(s)	618
BtsIMutI	CAGTG	3 cut(s)	509, 618, 868
BveI	ACCTGC	1 cut(s)	881
Cac8I	GCNNGC	1 cut(s)	547
CaiI	CAGNNNCTG	2 cut(s)	494, 542
Cfr10I	RCCGGY	2 cut(s)	254, 902
Cfr13I	GGNCC	1 cut(s)	107
Csp6I	GTAC	7 cut(s)	191, 302, 500, 510, 589, 669, 869
CspAI	ACCGGT	1 cut(s)	254
CviAII	CATG	8 cut(s)	64, 334, 579, 592, 615, 651, 772, 879
CviJI	RGCY	8 cut(s)	38, 164, 182, 549, 566, 677, 833, 846
CviKI_1	RGCY	8 cut(s)	38, 164, 182, 549, 566, 677, 833, 846
CviQI	GTAC	7 cut(s)	191, 302, 500, 510, 589, 669, 869
DdeI	CTNAG	3 cut(s)	327, 798, 847
DpnI	GATC	1 cut(s)	561
DpnII	GATC	1 cut(s)	559
Eco31I	GGTCTC	1 cut(s)	245
Eco32I	GATATC	1 cut(s)	859
Eco47I	GGWCC	1 cut(s)	107
Eco57I	CTGAAG	1 cut(s)	162
EcoRII	CCWGG	1 cut(s)	114
EcoRV	GATATC	1 cut(s)	859
EcoT22I	ATGCAT	2 cut(s)	87, 880
FaeI	CATG	8 cut(s)	67, 337, 582, 595, 618, 654, 775, 882
FalI	AAGNNNNNCTT	2 cut(s)	111, 143
FaqI	GGGAC	3 cut(s)	41, 524, 760
FatI	CATG	8 cut(s)	63, 333, 578, 591, 614, 650, 771, 878
FauNDI	CATATG	1 cut(s)	298
FokI	GGATG	3 cut(s)	212, 754, 821
FspBI	CTAG	3 cut(s)	428, 519, 546
HapII	CCGG	3 cut(s)	255, 563, 903
Hin1II	CATG	8 cut(s)	67, 337, 582, 595, 618, 654, 775, 882
HindIII	AAGCTT	1 cut(s)	675
HinfI	GANTC	6 cut(s)	32, 293, 424, 644, 794, 821
HpaII	CCGG	3 cut(s)	255, 563, 903
HphI	GGTGA	1 cut(s)	485
Hpy166II	GTNNAC	1 cut(s)	500
Hpy188I	TCNGA	5 cut(s)	268, 358, 559, 826, 850
Hpy188III	TCNNGA	5 cut(s)	140, 329, 428, 713, 733
Hpy8I	GTNNAC	1 cut(s)	500
HpyAV	CCTTC	4 cut(s)	8, 353, 470, 564
HpyCH4III	ACNGT	3 cut(s)	504, 514, 790
HpyF10VI	GCNNNNNNNGC	4 cut(s)	542, 629, 683, 758
HpyF3I	CTNAG	3 cut(s)	327, 798, 847
Hsp92II	CATG	8 cut(s)	67, 337, 582, 595, 618, 654, 775, 882
Kzo9I	GATC	1 cut(s)	559
LmnI	GCTCC	1 cut(s)	919
LweI	GCATC	2 cut(s)	190, 313
MaeI	CTAG	3 cut(s)	428, 519, 546
MaeIII	GTNAC	2 cut(s)	381, 521
MalI	GATC	1 cut(s)	561
MboI	GATC	1 cut(s)	559
MboII	GAAGA	7 cut(s)	19, 131, 155, 241, 380, 433, 728
MluCI	AATT	3 cut(s)	443, 457, 726
MmeI	TCCRAC	2 cut(s)	134, 621
MnlI	CCTC	3 cut(s)	154, 172, 400
Mph1103I	ATGCAT	2 cut(s)	87, 880
MseI	TTAA	2 cut(s)	273, 949
MspI	CCGG	3 cut(s)	255, 563, 903
MspR9I	CCNGG	1 cut(s)	116
Mva1269I	GAATGC	1 cut(s)	880
MvaI	CCWGG	1 cut(s)	116
MwoI	GCNNNNNNNGC	4 cut(s)	542, 629, 683, 758
NdeI	CATATG	1 cut(s)	298
NdeII	GATC	1 cut(s)	559
NheI	GCTAGC	1 cut(s)	545
NlaIII	CATG	8 cut(s)	67, 337, 582, 595, 618, 654, 775, 882
NsiI	ATGCAT	2 cut(s)	87, 880
NspI	RCATGY	3 cut(s)	337, 595, 654
PciI	ACATGT	2 cut(s)	591, 650
PctI	GAATGC	1 cut(s)	880
PfeI	GAWTC	6 cut(s)	32, 293, 424, 644, 794, 821
PinAI	ACCGGT	1 cut(s)	254
PscI	ACATGT	2 cut(s)	591, 650
Psp6I	CCWGG	1 cut(s)	114
PspGI	CCWGG	1 cut(s)	114
PspPI	GGNCC	1 cut(s)	107
PstI	CTGCAG	1 cut(s)	754
PstNI	CAGNNNCTG	2 cut(s)	494, 542
RsaI	GTAC	7 cut(s)	192, 303, 501, 511, 590, 670, 870
RsaNI	GTAC	7 cut(s)	191, 302, 500, 510, 589, 669, 869
SaqAI	TTAA	2 cut(s)	273, 949
Sau3AI	GATC	1 cut(s)	559
Sau96I	GGNCC	1 cut(s)	107
ScrFI	CCNGG	1 cut(s)	116
SfaNI	GCATC	2 cut(s)	190, 313
SfcI	CTRYAG	1 cut(s)	750
SinI	GGWCC	1 cut(s)	107
SmlI	CTYRAG	1 cut(s)	102
SmoI	CTYRAG	1 cut(s)	102
Sse9I	AATT	3 cut(s)	443, 457, 726
SsiI	CCGC	1 cut(s)	888
SspI	AATATT	1 cut(s)	784
SspMI	CTAG	3 cut(s)	428, 519, 546
StyD4I	CCNGG	1 cut(s)	114
TaaI	ACNGT	3 cut(s)	504, 514, 790
TaqI	TCGA	2 cut(s)	54, 647
TasI	AATT	3 cut(s)	443, 457, 726
TatI	WGTACW	2 cut(s)	190, 499
TfiI	GAWTC	6 cut(s)	32, 293, 424, 644, 794, 821
Tru1I	TTAA	2 cut(s)	273, 949
Tru9I	TTAA	2 cut(s)	273, 949
TscAI	CASTG	3 cut(s)	509, 625, 868
TspDTI	ATGAA	7 cut(s)	285, 339, 428, 567, 603, 788, 834
TspGWI	ACGGA	3 cut(s)	588, 627, 686
TspRI	CASTG	3 cut(s)	509, 625, 868
VpaK11BI	GGWCC	1 cut(s)	107
XbaI	TCTAGA	1 cut(s)	427
XceI	RCATGY	3 cut(s)	337, 595, 654
XspI	CTAG	3 cut(s)	428, 519, 546
Zsp2I	ATGCAT	2 cut(s)	87, 880

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