Basic Information

Type: gene

Biological Identity

Species

rosa_chinensis

Chromosome

Orthogroup ID

OG0004246

Physical Location & Seq

Genomic Coordinates Reverse (-)

44088518 .. 44091588

Gene Structure 3071 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

PRQ32548

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1050 bp

ATGTTGTCTTTGGCAACACATGAAGTTCACCTTTCCATACTAAGAGAGCTTGACATGCAAATCAGTGATCCTCCTGAGAACTTTAAGTTTGATCTTGAGGGTATCATTGATGATTTCATCTTTATATGTTTCTTCACGGGAAATGATTTTTTACCCCACATGCCAACATTGGAAATTCATGAGGGTGCAATTGATTTACTGATGACAGTCTACAAGAAAGAATTCAAGAATATTGGTGGCTATTTGATTGATATGATTCAGATATATGAGAACGTAAACTCGATCAGACGTCTTTGCTATAACAATGATTGGATAGAGGAAGACATTGATGCTGGAAGTTCAAACTTTAATTTCGAGGCAATTGAAGGATCTGCAGTTGTTTCAGTGGATAATGTTTCATCTTCCAAAATAGTGGAAAACACAAAGGAATTCAAGCAAAAATTGAAGGCCAGCATTAGAAGAAAATCTGATCTGTTTAGGAATGGTGATTTTGGCACTGACAAAGTACGATTGGGTGCTACAGGATTCAAAGAAAGATATTACAAATGCAAATTTTCTGCTGAAAGCCCGGGGGAGATTGAAAACAAAAGGAAGGAAGTAGTTAAAAGCTACACAGAAGGACTGCTCTGGGTTCTTTTATACTACTTTTCCGGCCCCCCATCGTGGAAATGGTTTTATCCTTTTCATTATGGACCATTTGCCTCTGATATGAAGGGCCTAGCTCAGGTCAAACCACAATTTCAGAAAGGTTCCCCATTTAAACCTATAGATACACTCATGGCTGTCCTGCCACCAAGAAGCGCTCATGCACTTCCTAAGGATTATAGGACACTTATGATGGAAGAGTGTTCCACAATCATTGATTTTTACCCTTCTGACTTTGAAATTGACATGGATGGGAAGAGATTTAAGTGGCAGGGTATCTGCAAACTTCCCTTTATAGCAGAATCCCGACTTCTACATGAGACCAGAAAATTGGAAAAGGAACTAATGGTATCATACTCCATTTCCTATTTCTCAATTATATTGATAGAAGACGTTTTATCATGA

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

349

Amino Acids

40.4

Weight (kDa)

5.43

Isoelectric Point (pI)

39.12

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
XRN_M	PF17846	29 - 90	1.8e-27	Xrn1 helical domain
XRN_M	PF17846	127 - 331	1.3e-85	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)
AatII	GACGTC	1 cut(s)	292
AccI	GTMKAC	1 cut(s)	210
AclWI	GGATC	2 cut(s)	62, 376
AcsI	RAATTY	4 cut(s)	174, 221, 428, 551
AcyI	GRCGYC	1 cut(s)	289
AfaI	GTAC	1 cut(s)	507
AfeI	AGCGCT	1 cut(s)	802
AfiI	CCNNNNNNNGG	2 cut(s)	663, 724
AgsI	TTSAA	8 cut(s)	226, 342, 365, 433, 445, 529, 581, 884
AluBI	AGCT	3 cut(s)	49, 609, 722
AluI	AGCT	3 cut(s)	49, 609, 722
Alw26I	GTCTC	1 cut(s)	959
AlwI	GGATC	2 cut(s)	62, 376
Ama87I	CYCGRG	1 cut(s)	568
Aor51HI	AGCGCT	1 cut(s)	802
AoxI	GGCC	3 cut(s)	447, 652, 715
ApoI	RAATTY	4 cut(s)	174, 221, 428, 551
Asp700I	GAANNNNTTC	1 cut(s)	221
AspLEI	GCGC	1 cut(s)	803
AspS9I	GGNCC	3 cut(s)	653, 692, 715
AsuC2I	CCSGG	2 cut(s)	569, 570
AsuHPI	GGTGA	2 cut(s)	20, 497
AvaI	CYCGRG	1 cut(s)	568
AvaII	GGWCC	1 cut(s)	692
AxyI	CCTNAGG	1 cut(s)	816
BbsI	GAAGAC	2 cut(s)	327, 1041
BccI	CCATC	3 cut(s)	667, 832, 890
BcnI	CCSGG	2 cut(s)	569, 570
BcoDI	GTCTC	1 cut(s)	959
BfaI	CTAG	1 cut(s)	719
BfmI	CTRYAG	3 cut(s)	372, 519, 765
BfoI	RGCGCY	1 cut(s)	804
Bme1390I	CCNGG	2 cut(s)	569, 570
Bme18I	GGWCC	1 cut(s)	692
BmeT110I	CYCGRG	1 cut(s)	568
BmgT120I	GGNCC	3 cut(s)	653, 692, 715
BmiI	GGNNCC	2 cut(s)	655, 751
BmrFI	CCNGG	2 cut(s)	569, 570
BmsI	GCATC	1 cut(s)	319
BpiI	GAAGAC	2 cut(s)	327, 1041
Bpu10I	CCTNAGC	1 cut(s)	723
BpuEI	CTTGAG	1 cut(s)	116
BpuMI	CCSGG	2 cut(s)	569, 570
BsaHI	GRCGYC	1 cut(s)	289
BsaI	GGTCTC	1 cut(s)	959
BsaJI	CCNNGG	2 cut(s)	568, 569
Bsc4I	CCNNNNNNNGG	2 cut(s)	663, 724
Bse21I	CCTNAGG	1 cut(s)	816
BseDI	CCNNGG	2 cut(s)	568, 569
BseGI	GGATG	1 cut(s)	901
BseLI	CCNNNNNNNGG	2 cut(s)	663, 724
BseMII	CTCAG	2 cut(s)	66, 737
BshFI	GGCC	3 cut(s)	449, 654, 717
BsiHKCI	CYCGRG	1 cut(s)	568
BsiSI	CCGG	2 cut(s)	569, 651
BslI	CCNNNNNNNGG	2 cut(s)	663, 724
BsmAI	GTCTC	1 cut(s)	959
BsnI	GGCC	3 cut(s)	449, 654, 717
Bso31I	GGTCTC	1 cut(s)	959
BsoBI	CYCGRG	1 cut(s)	568
Bsp143I	GATC	5 cut(s)	67, 91, 282, 368, 469
BspANI	GGCC	3 cut(s)	449, 654, 717
BspCNI	CTCAG	2 cut(s)	67, 736
BspHI	TCATGA	2 cut(s)	178, 1046
BspLI	GGNNCC	2 cut(s)	655, 751
BspMAI	CTGCAG	1 cut(s)	376
BspPI	GGATC	2 cut(s)	62, 376
BspTNI	GGTCTC	1 cut(s)	959
BssECI	CCNNGG	2 cut(s)	568, 569
BssMI	GATC	5 cut(s)	67, 91, 282, 368, 469
BssNI	GRCGYC	1 cut(s)	289
Bst4CI	ACNGT	1 cut(s)	208
Bst6I	CTCTTC	2 cut(s)	837, 896
BstACI	GRCGYC	1 cut(s)	289
BstC8I	GCNNGC	1 cut(s)	451
BstDEI	CTNAG	4 cut(s)	41, 75, 723, 816
BstENI	CCTNNNNNAGG	1 cut(s)	722
BstF5I	GGATG	1 cut(s)	901
BstH2I	RGCGCY	1 cut(s)	804
BstHHI	GCGC	1 cut(s)	803
BstKTI	GATC	5 cut(s)	70, 94, 285, 371, 472
BstMAI	GTCTC	1 cut(s)	959
BstMBI	GATC	5 cut(s)	67, 91, 282, 368, 469
BstMWI	GCNNNNNNNGC	1 cut(s)	55
BstNSI	RCATGY	2 cut(s)	58, 163
BstSCI	CCNGG	2 cut(s)	567, 568
BstSFI	CTRYAG	3 cut(s)	372, 519, 765
BstV2I	GAAGAC	2 cut(s)	327, 1041
BstX2I	RGATCY	1 cut(s)	368
BstXI	CCANNNNNNTGG	2 cut(s)	412, 976
BstYI	RGATCY	1 cut(s)	368
Bsu36I	CCTNAGG	1 cut(s)	816
BsuRI	GGCC	3 cut(s)	449, 654, 717
BtsCI	GGATG	1 cut(s)	901
BtsIMutI	CAGTG	3 cut(s)	70, 390, 495
Cac8I	GCNNGC	1 cut(s)	451
CciI	TCATGA	2 cut(s)	178, 1046
CfoI	GCGC	1 cut(s)	803
Cfr13I	GGNCC	3 cut(s)	653, 692, 715
Cfr9I	CCCGGG	1 cut(s)	568
Csp6I	GTAC	1 cut(s)	506
CspCI	CAANNNNNGTGG	2 cut(s)	841, 876
CviAII	CATG	9 cut(s)	20, 55, 160, 179, 778, 806, 892, 962, 1047
CviJI	RGCY	9 cut(s)	49, 240, 449, 567, 609, 654, 717, 722, 782
CviKI_1	RGCY	9 cut(s)	49, 240, 449, 567, 609, 654, 717, 722, 782
CviQI	GTAC	1 cut(s)	506
DdeI	CTNAG	4 cut(s)	41, 75, 723, 816
DpnI	GATC	5 cut(s)	69, 93, 284, 370, 471
DpnII	GATC	5 cut(s)	67, 91, 282, 368, 469
DraI	TTTAAA	1 cut(s)	760
Eam1104I	CTCTTC	2 cut(s)	837, 896
EarI	CTCTTC	2 cut(s)	837, 896
Eco31I	GGTCTC	1 cut(s)	959
Eco47I	GGWCC	1 cut(s)	692
Eco47III	AGCGCT	1 cut(s)	802
Eco81I	CCTNAGG	1 cut(s)	816
Eco88I	CYCGRG	1 cut(s)	568
EcoNI	CCTNNNNNAGG	1 cut(s)	722
EcoO109I	RGGNCCY	1 cut(s)	715
EcoRI	GAATTC	2 cut(s)	221, 428
FaeI	CATG	9 cut(s)	23, 58, 163, 182, 781, 809, 895, 965, 1050
FalI	AAGNNNNNCTT	2 cut(s)	15, 47
FatI	CATG	9 cut(s)	19, 54, 159, 178, 777, 805, 891, 961, 1046
FblI	GTMKAC	1 cut(s)	210
FokI	GGATG	1 cut(s)	908
FspBI	CTAG	1 cut(s)	719
GlaI	GCGC	1 cut(s)	802
HaeII	RGCGCY	1 cut(s)	804
HaeIII	GGCC	3 cut(s)	449, 654, 717
HapII	CCGG	2 cut(s)	569, 651
HhaI	GCGC	1 cut(s)	803
Hin1I	GRCGYC	1 cut(s)	289
Hin1II	CATG	9 cut(s)	23, 58, 163, 182, 781, 809, 895, 965, 1050
Hin6I	GCGC	1 cut(s)	801
HinP1I	GCGC	1 cut(s)	801
HinfI	GANTC	3 cut(s)	256, 525, 947
HpaII	CCGG	2 cut(s)	569, 651
HphI	GGTGA	2 cut(s)	20, 497
Hpy166II	GTNNAC	3 cut(s)	28, 211, 277
Hpy188I	TCNGA	6 cut(s)	261, 287, 469, 706, 744, 877
Hpy188III	TCNNGA	6 cut(s)	74, 95, 179, 226, 951, 1047
Hpy8I	GTNNAC	3 cut(s)	28, 211, 277
HpyAV	CCTTC	6 cut(s)	359, 439, 586, 611, 706, 882
HpyCH4III	ACNGT	1 cut(s)	208
HpyCH4IV	ACGT	3 cut(s)	273, 289, 1038
HpyCH4V	TGCA	6 cut(s)	58, 188, 374, 549, 809, 927
HpyF10VI	GCNNNNNNNGC	1 cut(s)	55
HpyF3I	CTNAG	4 cut(s)	41, 75, 723, 816
HpySE526I	ACGT	3 cut(s)	273, 289, 1038
Hsp92I	GRCGYC	1 cut(s)	289
Hsp92II	CATG	9 cut(s)	23, 58, 163, 182, 781, 809, 895, 965, 1050
HspAI	GCGC	1 cut(s)	801
Kzo9I	GATC	5 cut(s)	67, 91, 282, 368, 469
LweI	GCATC	1 cut(s)	319
MaeI	CTAG	1 cut(s)	719
MaeII	ACGT	3 cut(s)	273, 289, 1038
MalI	GATC	5 cut(s)	69, 93, 284, 370, 471
MboI	GATC	5 cut(s)	67, 91, 282, 368, 469
MboII	GAAGA	7 cut(s)	124, 332, 393, 471, 854, 913, 1046
MfeI	CAATTG	2 cut(s)	189, 360
MflI	RGATCY	1 cut(s)	368
MnlI	CCTC	6 cut(s)	81, 91, 175, 310, 349, 712
MroXI	GAANNNNTTC	1 cut(s)	221
MseI	TTAA	5 cut(s)	84, 348, 603, 759, 909
MslI	CAYNNNNRTG	1 cut(s)	183
MspI	CCGG	2 cut(s)	569, 651
MspR9I	CCNGG	2 cut(s)	569, 570
MunI	CAATTG	2 cut(s)	189, 360
MwoI	GCNNNNNNNGC	1 cut(s)	55
NciI	CCSGG	2 cut(s)	569, 570
NdeII	GATC	5 cut(s)	67, 91, 282, 368, 469
NlaIII	CATG	9 cut(s)	23, 58, 163, 182, 781, 809, 895, 965, 1050
NlaIV	GGNNCC	2 cut(s)	655, 751
NspI	RCATGY	2 cut(s)	58, 163
PagI	TCATGA	2 cut(s)	178, 1046
PdmI	GAANNNNTTC	1 cut(s)	221
PfeI	GAWTC	3 cut(s)	256, 525, 947
PspN4I	GGNNCC	2 cut(s)	655, 751
PspPI	GGNCC	3 cut(s)	653, 692, 715
PstI	CTGCAG	1 cut(s)	376
PsuI	RGATCY	1 cut(s)	368
RsaI	GTAC	1 cut(s)	507
RsaNI	GTAC	1 cut(s)	506
RseI	CAYNNNNRTG	1 cut(s)	183
SaqAI	TTAA	5 cut(s)	84, 348, 603, 759, 909
Sau3AI	GATC	5 cut(s)	67, 91, 282, 368, 469
Sau96I	GGNCC	3 cut(s)	653, 692, 715
ScrFI	CCNGG	2 cut(s)	569, 570
SfaNI	GCATC	1 cut(s)	319
SfcI	CTRYAG	3 cut(s)	372, 519, 765
SinI	GGWCC	1 cut(s)	692
SmaI	CCCGGG	1 cut(s)	570
SmiMI	CAYNNNNRTG	1 cut(s)	183
SmlI	CTYRAG	1 cut(s)	95
SmoI	CTYRAG	1 cut(s)	95
SspI	AATATT	1 cut(s)	232
SspMI	CTAG	1 cut(s)	719
StyD4I	CCNGG	2 cut(s)	567, 568
TaaI	ACNGT	1 cut(s)	208
TaiI	ACGT	3 cut(s)	276, 292, 1041
TaqI	TCGA	2 cut(s)	281, 354
TfiI	GAWTC	3 cut(s)	256, 525, 947
Tru1I	TTAA	5 cut(s)	84, 348, 603, 759, 909
Tru9I	TTAA	5 cut(s)	84, 348, 603, 759, 909
TscAI	CASTG	3 cut(s)	70, 390, 502
TspDTI	ATGAA	6 cut(s)	36, 106, 167, 387, 674, 725
TspMI	CCCGGG	1 cut(s)	568
TspRI	CASTG	3 cut(s)	70, 390, 502
VpaK11BI	GGWCC	1 cut(s)	692
XagI	CCTNNNNNAGG	1 cut(s)	722
XapI	RAATTY	4 cut(s)	174, 221, 428, 551
XceI	RCATGY	2 cut(s)	58, 163
XcmI	CCANNNNNNNNNTGG	1 cut(s)	666
XmaI	CCCGGG	1 cut(s)	568
XmiI	GTMKAC	1 cut(s)	210
XmnI	GAANNNNTTC	1 cut(s)	221
XspI	CTAG	1 cut(s)	719
ZraI	GACGTC	1 cut(s)	290

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