Basic Information

Type: gene

Biological Identity

Species

rosa_multiflora

Chromosome

Rmu_sc0000148.1

Orthogroup ID

OG0004246

Physical Location & Seq

Genomic Coordinates Reverse (-)

92748 .. 95006

Gene Structure 2259 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

N/A

Sequence Viewer

CDS Protein Promoter (2k)

Length: 996 bp

atgaagggcctagctcagatcaaaccacagtttcaaaaaggttccccatttaaacctatagatacactcatggctgtcctgccaccaagaagagctcatgcacttcctaaggattatcagacatttatgacggaagagtgttccacaatcattgatttttatccttctgaggaaattgacaggaatgctgagaaacttgatcagttattcatgcgaagcacccacggcatggcatcccaaattgtttcactgtctaatggtgacgatctgttgatcaatattgacaccaatttgagctttggagtcggtggttttattcgtcagcttgatgacaatgatgccaaggtcaaagaaagagatgatagctgtgaagaagactctgtattcatccagcaagttcaggcagggtttagaaaaccaaatgatttgggaaatgcaagttttcgcaatggtaaattcacttcaagctgtcctgccaattcaattcacaaatatgctggttctggatggggctgtggtagaggagcaaatggtagttctaattcaggagaccgagtttatgctccaaaaggaatatccagggatcaaagagtagtgtcatctcctagctcataccatgccaagggtacctcagattatagaaaaggcacattacaacatggcttcagggaattaaatatatcagagtcaggccaatgctggaggcctaatggaaggggagttcagtcattgaataatgatttatggccatctagaaatagtgtctctcaggatagaaactttgctggtcatggttcacagtcatatcatacttggggccgtggcagagggcaacacaattcgtggcagcacacctatccatttgctggtacaggtagaagccagcaagacccttggacacacacccggcctccttttgctgccggtggaagagggaactttgttcaacgtaatcatgtagaaagtcagaatgggcagcggtgggcagggagctaa

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000966 GO:0000967 GO:0003674 GO:0003824 GO:0004518 GO:0004527 GO:0004532 GO:0004534 GO:0004540 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006139 GO:0006364 GO:0006396 GO:0006401 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0008409 GO:0009056 GO:0009057 GO:0009893 GO:0009987 GO:0010467 GO:0010468 GO:0010586 GO:0010587 GO:0010604 GO:0010628 GO:0016070 GO:0016072 GO:0016075 GO:0016787 GO:0016788 GO:0016796 GO:0016896 GO:0019222 GO:0019439 GO:0022613 GO:0034470 GO:0034471 GO:0034641 GO:0034655 GO:0034660 GO:0034661 GO:0042254 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043632 GO:0043633 GO:0043634 GO:0044085 GO:0044237 GO:0044238 GO:0044248 GO:0044260 GO:0044265 GO:0044270 GO:0044424 GO:0044464 GO:0046483 GO:0046700 GO:0048518 GO:0048519 GO:0048523 GO:0050789 GO:0050794 GO:0060147 GO:0060149 GO:0060255 GO:0060968 GO:0060969 GO:0065007 GO:0071025 GO:0071027 GO:0071029 GO:0071035 GO:0071046 GO:0071704 GO:0071840 GO:0090304 GO:0090305 GO:0090501 GO:0090503 GO:0140098 GO:1901360 GO:1901361 GO:1901575

KEGG Pathways

Metabolic & Signaling

ko03008 ko03018 map03008 map03018

Pfam Domains

Protein Families

XRN_N

Protein Analysis

331

Amino Acids

36.72

Weight (kDa)

9.19

Isoelectric Point (pI)

47.63

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
XRN_M	PF17846	1 - 57	3.1e-16	Xrn1 helical domain

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: OG0004246)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_7g18720 FvH4_7g18720 FvH4_7g18720 FvH4_7g18720
malus_domestica	MD00G1128400.v1.1 MD11G1172900.v1.1
prunus_persica	Prupe.6G141200_v2.0.a1 Prupe.6G141200_v2.0.a1 Prupe.6G141200_v2.0.a1 Prupe.6G141200_v2.0.a1
pyrus_communis	pycom11g14580 pycom520g00080
rosa_chinensis	RchiOBHm_Chr1g0334231 RchiOBHm_Chr5g0047421 RchiOBHm_Chr5g0047601 RchiOBHm_Chr5g0047631 RchiOBHm_Chr5g0047791 RchiOBHm_Chr5g0047991
rosa_multiflora	Rmu_sc0000148.1_g000001 Rmu_sc0000148.1_g000016 Rmu_sc0003441.1_g000004
rosa_roxburghii	Rroxscaffold_1G00029700 Rroxscaffold_1G00033910
rosa_rugosa	Rorug05G0236400
rosa_samantha	Rh1CG129900 Rh5AG315300 Rh5AG315400 Rh5DG335300 Rh5DG335400
rosa_wichuraiana	Rw0G017980 Rw5G029460 Rw5G029520 Rw5G029550

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc65I	GGTACC	1 cut(s)	626
AccB1I	GGYRCC	1 cut(s)	626
AccB7I	CCANNNNNTGG	2 cut(s)	229, 866
AciI	CCGC	1 cut(s)	979
AclWI	GGATC	1 cut(s)	591
AcoI	YGGCCR	1 cut(s)	746
AcsI	RAATTY	1 cut(s)	455
AcuI	CTGAAG	1 cut(s)	649
AfaI	GTAC	2 cut(s)	628, 871
AfiI	CCNNNNNNNGG	3 cut(s)	229, 622, 866
AgsI	TTSAA	5 cut(s)	35, 465, 483, 733, 947
AjnI	CCWGG	1 cut(s)	578
AloI	GAACNNNNNNTCC	2 cut(s)	705, 737
AluBI	AGCT	8 cut(s)	14, 95, 297, 325, 366, 468, 609, 993
AluI	AGCT	8 cut(s)	14, 95, 297, 325, 366, 468, 609, 993
Alw21I	GWGCWC	1 cut(s)	97
Alw26I	GTCTC	2 cut(s)	543, 769
AlwI	GGATC	1 cut(s)	591
AoxI	GGCC	6 cut(s)	7, 691, 704, 746, 817, 908
ApeKI	GCWGC	3 cut(s)	847, 920, 976
ApoI	RAATTY	1 cut(s)	455
Asp718I	GGTACC	1 cut(s)	626
AspS9I	GGNCC	2 cut(s)	7, 817
AsuC2I	CCSGG	1 cut(s)	907
AsuHPI	GGTGA	1 cut(s)	272
AxyI	CCTNAGG	1 cut(s)	108
BalI	TGGCCA	1 cut(s)	748
BanI	GGYRCC	1 cut(s)	626
BanII	GRGCYC	1 cut(s)	97
BarI	GAAGNNNNNNTAC	2 cut(s)	445, 477
BbsI	GAAGAC	1 cut(s)	381
Bbv12I	GWGCWC	1 cut(s)	97
BbvI	GCAGC	3 cut(s)	859, 907, 988
BccI	CCATC	2 cut(s)	501, 757
BceAI	ACGGC	2 cut(s)	241, 804
BciT130I	CCWGG	1 cut(s)	580
BclI	TGATCA	2 cut(s)	199, 273
BcnI	CCSGG	1 cut(s)	907
BcoDI	GTCTC	2 cut(s)	543, 769
BfaI	CTAG	3 cut(s)	11, 606, 753
BfmI	CTRYAG	1 cut(s)	57
BisI	GCNGC	3 cut(s)	848, 921, 977
BlsI	GCNGC	3 cut(s)	849, 922, 978
Bme1390I	CCNGG	2 cut(s)	580, 907
BmgT120I	GGNCC	2 cut(s)	7, 817
BmiI	GGNNCC	3 cut(s)	43, 628, 818
BmrFI	CCNGG	2 cut(s)	580, 907
BmsI	GCATC	2 cut(s)	242, 328
BpiI	GAAGAC	1 cut(s)	381
BpmI	CTGGAG	1 cut(s)	721
BpuMI	CCSGG	1 cut(s)	907
BsaBI	GATNNNNATC	1 cut(s)	159
BsaI	GGTCTC	1 cut(s)	543
BsaJI	CCNNGG	6 cut(s)	223, 342, 579, 621, 820, 893
BsaXI	ACNNNNNCTCC	4 cut(s)	540, 570, 895, 925
Bsc4I	CCNNNNNNNGG	3 cut(s)	229, 622, 866
Bse118I	RCCGGY	1 cut(s)	923
Bse21I	CCTNAGG	1 cut(s)	108
Bse3DI	GCAATG	1 cut(s)	454
Bse8I	GATNNNNATC	1 cut(s)	159
BseBI	CCWGG	1 cut(s)	580
BseDI	CCNNGG	6 cut(s)	223, 342, 579, 621, 820, 893
BseGI	GGATG	3 cut(s)	233, 387, 512
BseJI	GATNNNNATC	1 cut(s)	159
BseLI	CCNNNNNNNGG	3 cut(s)	229, 622, 866
BseMI	GCAATG	1 cut(s)	454
BseMII	CTCAG	5 cut(s)	29, 159, 180, 645, 782
BseRI	GAGGAG	1 cut(s)	537
BseXI	GCAGC	3 cut(s)	859, 907, 988
BshFI	GGCC	6 cut(s)	9, 693, 706, 748, 819, 910
BshNI	GGYRCC	1 cut(s)	626
BsiHKAI	GWGCWC	1 cut(s)	97
BsiSI	CCGG	2 cut(s)	907, 924
BslI	CCNNNNNNNGG	3 cut(s)	229, 622, 866
BsmAI	GTCTC	2 cut(s)	543, 769
BsmI	GAATGC	1 cut(s)	190
BsnI	GGCC	6 cut(s)	9, 693, 706, 748, 819, 910
Bso31I	GGTCTC	1 cut(s)	543
Bsp1286I	GDGCHC	1 cut(s)	97
Bsp143I	GATC	5 cut(s)	18, 199, 265, 273, 583
BspACI	CCGC	1 cut(s)	979
BspANI	GGCC	6 cut(s)	9, 693, 706, 748, 819, 910
BspCNI	CTCAG	5 cut(s)	28, 160, 181, 644, 781
BspLI	GGNNCC	3 cut(s)	43, 628, 818
BspPI	GGATC	1 cut(s)	591
BspQI	GCTCTTC	1 cut(s)	85
BspT107I	GGYRCC	1 cut(s)	626
BspTNI	GGTCTC	1 cut(s)	543
BsrDI	GCAATG	1 cut(s)	454
BsrFI	RCCGGY	1 cut(s)	923
BssAI	RCCGGY	1 cut(s)	923
BssECI	CCNNGG	6 cut(s)	223, 342, 579, 621, 820, 893
BssMI	GATC	5 cut(s)	18, 199, 265, 273, 583
BssT1I	CCWWGG	3 cut(s)	342, 621, 893
Bst2UI	CCWGG	1 cut(s)	580
Bst4CI	ACNGT	3 cut(s)	30, 252, 801
Bst6I	CTCTTC	3 cut(s)	85, 129, 925
BstC8I	GCNNGC	1 cut(s)	884
BstDEI	CTNAG	6 cut(s)	15, 108, 168, 189, 631, 768
BstDSI	CCRYGG	2 cut(s)	223, 820
BstF5I	GGATG	3 cut(s)	233, 387, 512
BstKTI	GATC	5 cut(s)	21, 202, 268, 276, 586
BstMAI	GTCTC	2 cut(s)	543, 769
BstMBI	GATC	5 cut(s)	18, 199, 265, 273, 583
BstMWI	GCNNNNNNNGC	1 cut(s)	225
BstNI	CCWGG	1 cut(s)	580
BstSCI	CCNGG	2 cut(s)	578, 905
BstSFI	CTRYAG	1 cut(s)	57
BstV1I	GCAGC	3 cut(s)	859, 907, 988
BstV2I	GAAGAC	1 cut(s)	381
Bsu36I	CCTNAGG	1 cut(s)	108
BsuRI	GGCC	6 cut(s)	9, 693, 706, 748, 819, 910
BtgI	CCRYGG	2 cut(s)	223, 820
BtsCI	GGATG	3 cut(s)	233, 387, 512
BtsIMutI	CAGTG	1 cut(s)	248
Cac8I	GCNNGC	1 cut(s)	884
Cfr10I	RCCGGY	1 cut(s)	923
Cfr13I	GGNCC	2 cut(s)	7, 817
Csp6I	GTAC	2 cut(s)	627, 870
CspCI	CAANNNNNGTGG	2 cut(s)	133, 168
CviAII	CATG	8 cut(s)	70, 98, 211, 229, 617, 659, 791, 956
CviQI	GTAC	2 cut(s)	627, 870
DdeI	CTNAG	6 cut(s)	15, 108, 168, 189, 631, 768
DpnI	GATC	5 cut(s)	20, 201, 267, 275, 585
DpnII	GATC	5 cut(s)	18, 199, 265, 273, 583
DraI	TTTAAA	1 cut(s)	52
EaeI	YGGCCR	1 cut(s)	746
Eam1104I	CTCTTC	3 cut(s)	85, 129, 925
EarI	CTCTTC	3 cut(s)	85, 129, 925
Ecl136II	GAGCTC	1 cut(s)	95
Eco130I	CCWWGG	3 cut(s)	342, 621, 893
Eco147I	AGGCCT	1 cut(s)	706
Eco24I	GRGCYC	1 cut(s)	97
Eco31I	GGTCTC	1 cut(s)	543
Eco53kI	GAGCTC	1 cut(s)	95
Eco57I	CTGAAG	1 cut(s)	649
Eco81I	CCTNAGG	1 cut(s)	108
EcoICRI	GAGCTC	1 cut(s)	95
EcoO109I	RGGNCCY	1 cut(s)	7
EcoRII	CCWGG	1 cut(s)	578
EcoT14I	CCWWGG	3 cut(s)	342, 621, 893
EcoT38I	GRGCYC	1 cut(s)	97
ErhI	CCWWGG	3 cut(s)	342, 621, 893
FaeI	CATG	8 cut(s)	73, 101, 214, 232, 620, 662, 794, 959
FatI	CATG	8 cut(s)	69, 97, 210, 228, 616, 658, 790, 955
FbaI	TGATCA	2 cut(s)	199, 273
Fnu4HI	GCNGC	3 cut(s)	848, 921, 977
FokI	GGATG	3 cut(s)	220, 374, 519
FriOI	GRGCYC	1 cut(s)	97
Fsp4HI	GCNGC	3 cut(s)	848, 921, 977
FspBI	CTAG	3 cut(s)	11, 606, 753
GluI	GCNGC	3 cut(s)	848, 921, 977
GsuI	CTGGAG	1 cut(s)	721
HaeIII	GGCC	6 cut(s)	9, 693, 706, 748, 819, 910
HapII	CCGG	2 cut(s)	907, 924
Hin1II	CATG	8 cut(s)	73, 101, 214, 232, 620, 662, 794, 959
HinfI	GANTC	3 cut(s)	303, 377, 686
HpaII	CCGG	2 cut(s)	907, 924
HphI	GGTGA	1 cut(s)	272
Hpy166II	GTNNAC	1 cut(s)	797
Hpy188I	TCNGA	6 cut(s)	18, 120, 169, 634, 685, 969
Hpy188III	TCNNGA	4 cut(s)	504, 546, 753, 770
Hpy8I	GTNNAC	1 cut(s)	797
HpyAV	CCTTC	2 cut(s)	174, 708
HpyCH4III	ACNGT	3 cut(s)	30, 252, 801
HpyCH4IV	ACGT	1 cut(s)	949
HpyCH4V	TGCA	2 cut(s)	101, 437
HpyF10VI	GCNNNNNNNGC	1 cut(s)	225
HpyF3I	CTNAG	6 cut(s)	15, 108, 168, 189, 631, 768
HpySE526I	ACGT	1 cut(s)	949
Hsp92II	CATG	8 cut(s)	73, 101, 214, 232, 620, 662, 794, 959
KpnI	GGTACC	1 cut(s)	630
Ksp22I	TGATCA	2 cut(s)	199, 273
Kzo9I	GATC	5 cut(s)	18, 199, 265, 273, 583
LguI	GCTCTTC	1 cut(s)	85
LmnI	GCTCC	3 cut(s)	524, 568, 990
Lsp1109I	GCAGC	3 cut(s)	859, 907, 988
LweI	GCATC	2 cut(s)	242, 328
MaeI	CTAG	3 cut(s)	11, 606, 753
MaeII	ACGT	1 cut(s)	949
MaeIII	GTNAC	1 cut(s)	260
MalI	GATC	5 cut(s)	20, 201, 267, 275, 585
MboI	GATC	5 cut(s)	18, 199, 265, 273, 583
MboII	GAAGA	5 cut(s)	102, 146, 383, 386, 942
MhlI	GDGCHC	1 cut(s)	97
MlsI	TGGCCA	1 cut(s)	748
MluCI	AATT	9 cut(s)	174, 240, 289, 455, 478, 483, 541, 671, 838
MluNI	TGGCCA	1 cut(s)	748
MlyI	GAGTC	3 cut(s)	312, 371, 695
MnlI	CCTC	7 cut(s)	163, 515, 640, 696, 821, 921, 926
Mox20I	TGGCCA	1 cut(s)	748
MscI	TGGCCA	1 cut(s)	748
MseI	TTAA	2 cut(s)	51, 674
MslI	CAYNNNNRTG	1 cut(s)	492
Msp20I	TGGCCA	1 cut(s)	748
MspA1I	CMGCKG	1 cut(s)	979
MspI	CCGG	2 cut(s)	907, 924
MspR9I	CCNGG	2 cut(s)	580, 907
Mva1269I	GAATGC	1 cut(s)	190
MvaI	CCWGG	1 cut(s)	580
MwoI	GCNNNNNNNGC	1 cut(s)	225
NciI	CCSGG	1 cut(s)	907
NdeII	GATC	5 cut(s)	18, 199, 265, 273, 583
NlaIII	CATG	8 cut(s)	73, 101, 214, 232, 620, 662, 794, 959
NlaIV	GGNNCC	3 cut(s)	43, 628, 818
NmuCI	GTSAC	1 cut(s)	260
PceI	AGGCCT	1 cut(s)	706
PciSI	GCTCTTC	1 cut(s)	85
PctI	GAATGC	1 cut(s)	190
PflMI	CCANNNNNTGG	2 cut(s)	229, 866
PkrI	GCNGC	3 cut(s)	849, 922, 978
PleI	GAGTC	3 cut(s)	311, 371, 694
PpsI	GAGTC	3 cut(s)	311, 371, 694
Psp124BI	GAGCTC	1 cut(s)	97
Psp6I	CCWGG	1 cut(s)	578
PspGI	CCWGG	1 cut(s)	578
PspN4I	GGNNCC	3 cut(s)	43, 628, 818
PspPI	GGNCC	2 cut(s)	7, 817
RsaI	GTAC	2 cut(s)	628, 871
RsaNI	GTAC	2 cut(s)	627, 870
RseI	CAYNNNNRTG	1 cut(s)	492
SacI	GAGCTC	1 cut(s)	97
SapI	GCTCTTC	1 cut(s)	85
SaqAI	TTAA	2 cut(s)	51, 674
SatI	GCNGC	3 cut(s)	848, 921, 977
Sau3AI	GATC	5 cut(s)	18, 199, 265, 273, 583
Sau96I	GGNCC	2 cut(s)	7, 817
SchI	GAGTC	3 cut(s)	312, 371, 695
ScrFI	CCNGG	2 cut(s)	580, 907
SduI	GDGCHC	1 cut(s)	97
SfaNI	GCATC	2 cut(s)	242, 328
SfcI	CTRYAG	1 cut(s)	57
SmiMI	CAYNNNNRTG	1 cut(s)	492
Sse9I	AATT	9 cut(s)	174, 240, 289, 455, 478, 483, 541, 671, 838
SseBI	AGGCCT	1 cut(s)	706
SsiI	CCGC	1 cut(s)	979
SspI	AATATT	1 cut(s)	280
SspMI	CTAG	3 cut(s)	11, 606, 753
SstI	GAGCTC	1 cut(s)	97
StuI	AGGCCT	1 cut(s)	706
StyD4I	CCNGG	2 cut(s)	578, 905
StyI	CCWWGG	3 cut(s)	342, 621, 893
TaaI	ACNGT	3 cut(s)	30, 252, 801
TaiI	ACGT	1 cut(s)	952
TaqII	GACCGA	1 cut(s)	567
TasI	AATT	9 cut(s)	174, 240, 289, 455, 478, 483, 541, 671, 838
Tru1I	TTAA	2 cut(s)	51, 674
Tru9I	TTAA	2 cut(s)	51, 674
TscAI	CASTG	1 cut(s)	255
TseFI	GTSAC	1 cut(s)	260
TseI	GCWGC	3 cut(s)	847, 920, 976
Tsp45I	GTSAC	1 cut(s)	260
TspDTI	ATGAA	3 cut(s)	17, 199, 376
TspGWI	ACGGA	1 cut(s)	146
TspRI	CASTG	1 cut(s)	255
Van91I	CCANNNNNTGG	2 cut(s)	229, 866
XapI	RAATTY	1 cut(s)	455
XbaI	TCTAGA	1 cut(s)	752
XspI	CTAG	3 cut(s)	11, 606, 753

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