Basic Information

Type: gene

Biological Identity

Species

rosa_chinensis

Chromosome

Orthogroup ID

OG0004246

Physical Location & Seq

Genomic Coordinates Reverse (-)

43831883 .. 43832734

Gene Structure 852 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

PRQ32533

Sequence Viewer

CDS Protein Promoter (2k)

Length: 441 bp

ATGTCTCATCTTCCGAAATGCTTCTGCTTAATTATACTATGGTGGGATGATGAGGGTGGTTCTTCATTTTCGGATGTGGCTAAATATTTTGGCCTCATTGTTATCTATATCATTATGTTGCAGATAGTGGAAAACACAAAGGAATTCAAGCAGAAATTAAAGGCCAGCATTAGAAGAAAATCTGATCTATTTAGGAATGGTGATTTTGGGACTGACAGTATGGAGCACTCCTTTCCGGAAGTTACAGTACAATTGGGTGCTACAGGATTTGAAGAAAGATATTACAAATACAAATTTTCTGCTGAAAGCCCGGGGGAAATTGAAAGCAAAAGGAAAGAAGTAGTATGTCTTGCCATATATTATATCTTAATCTTGCATTTACTGTTGGCAAATTTGTCCATGTTTTCTCATTTCTCCACTTCTATTTTTATTTTCTTTTGA

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

146

Amino Acids

16.97

Weight (kDa)

6.42

Isoelectric Point (pI)

43.16

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
XRN_M	PF17846	66 - 115	8.8e-06	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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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)
AccIII	TCCGGA	1 cut(s)	235
AcsI	RAATTY	3 cut(s)	143, 293, 391
AfaI	GTAC	1 cut(s)	249
AgsI	TTSAA	3 cut(s)	148, 272, 323
Alw21I	GWGCWC	1 cut(s)	228
Alw26I	GTCTC	1 cut(s)	9
Ama87I	CYCGRG	1 cut(s)	310
Aor13HI	TCCGGA	1 cut(s)	235
AoxI	GGCC	2 cut(s)	91, 162
ApoI	RAATTY	3 cut(s)	143, 293, 391
Asp700I	GAANNNNTTC	1 cut(s)	20
AsuC2I	CCSGG	2 cut(s)	311, 312
AsuHPI	GGTGA	1 cut(s)	212
AvaI	CYCGRG	1 cut(s)	310
BarI	GAAGNNNNNNTAC	2 cut(s)	231, 263
Bbv12I	GWGCWC	1 cut(s)	228
BcnI	CCSGG	2 cut(s)	311, 312
BcoDI	GTCTC	1 cut(s)	9
BfmI	CTRYAG	1 cut(s)	261
Bme1390I	CCNGG	2 cut(s)	311, 312
BmeT110I	CYCGRG	1 cut(s)	310
BmrFI	CCNGG	2 cut(s)	311, 312
BpuMI	CCSGG	2 cut(s)	311, 312
BsaJI	CCNNGG	2 cut(s)	310, 311
BsaWI	WCCGGW	1 cut(s)	235
BseAI	TCCGGA	1 cut(s)	235
BseDI	CCNNGG	2 cut(s)	310, 311
BseGI	GGATG	2 cut(s)	52, 79
BshFI	GGCC	2 cut(s)	93, 164
BsiHKAI	GWGCWC	1 cut(s)	228
BsiHKCI	CYCGRG	1 cut(s)	310
BsiSI	CCGG	2 cut(s)	236, 311
BslFI	GGGAC	1 cut(s)	223
BsmAI	GTCTC	1 cut(s)	9
BsmFI	GGGAC	1 cut(s)	223
BsnI	GGCC	2 cut(s)	93, 164
BsoBI	CYCGRG	1 cut(s)	310
Bsp1286I	GDGCHC	1 cut(s)	228
Bsp13I	TCCGGA	1 cut(s)	235
Bsp143I	GATC	1 cut(s)	184
BspANI	GGCC	2 cut(s)	93, 164
BspEI	TCCGGA	1 cut(s)	235
BssECI	CCNNGG	2 cut(s)	310, 311
BssMI	GATC	1 cut(s)	184
Bst4CI	ACNGT	3 cut(s)	218, 247, 384
BstC8I	GCNNGC	1 cut(s)	166
BstF5I	GGATG	2 cut(s)	52, 79
BstKTI	GATC	1 cut(s)	187
BstMAI	GTCTC	1 cut(s)	9
BstMBI	GATC	1 cut(s)	184
BstSCI	CCNGG	2 cut(s)	309, 310
BstSFI	CTRYAG	1 cut(s)	261
BsuRI	GGCC	2 cut(s)	93, 164
BtsCI	GGATG	2 cut(s)	52, 79
Cac8I	GCNNGC	1 cut(s)	166
Cfr9I	CCCGGG	1 cut(s)	310
Csp6I	GTAC	1 cut(s)	248
CviAII	CATG	1 cut(s)	400
CviJI	RGCY	4 cut(s)	80, 93, 164, 309
CviKI_1	RGCY	4 cut(s)	80, 93, 164, 309
CviQI	GTAC	1 cut(s)	248
DpnI	GATC	1 cut(s)	186
DpnII	GATC	1 cut(s)	184
Eco88I	CYCGRG	1 cut(s)	310
EcoRI	GAATTC	1 cut(s)	143
FaeI	CATG	1 cut(s)	403
FaqI	GGGAC	1 cut(s)	223
FatI	CATG	1 cut(s)	399
FokI	GGATG	2 cut(s)	59, 86
HaeIII	GGCC	2 cut(s)	93, 164
HapII	CCGG	2 cut(s)	236, 311
Hin1II	CATG	1 cut(s)	403
HpaII	CCGG	2 cut(s)	236, 311
HphI	GGTGA	1 cut(s)	212
Hpy188I	TCNGA	3 cut(s)	15, 73, 184
Hpy188III	TCNNGA	1 cut(s)	236
HpyCH4III	ACNGT	3 cut(s)	218, 247, 384
HpyCH4V	TGCA	2 cut(s)	121, 376
Hsp92II	CATG	1 cut(s)	403
Kpn2I	TCCGGA	1 cut(s)	235
Kzo9I	GATC	1 cut(s)	184
LmnI	GCTCC	1 cut(s)	223
LpnPI	CCDG	4 cut(s)	178, 249, 249, 324
MaeIII	GTNAC	1 cut(s)	241
MalI	GATC	1 cut(s)	186
MboI	GATC	1 cut(s)	184
MboII	GAAGA	3 cut(s)	54, 186, 284
MfeI	CAATTG	1 cut(s)	251
MhlI	GDGCHC	1 cut(s)	228
MluCI	AATT	7 cut(s)	30, 143, 155, 251, 293, 318, 391
MnlI	CCTC	2 cut(s)	46, 104
MroI	TCCGGA	1 cut(s)	235
MroXI	GAANNNNTTC	1 cut(s)	20
MseI	TTAA	3 cut(s)	29, 158, 368
MspI	CCGG	2 cut(s)	236, 311
MspR9I	CCNGG	2 cut(s)	311, 312
MunI	CAATTG	1 cut(s)	251
NciI	CCSGG	2 cut(s)	311, 312
NdeII	GATC	1 cut(s)	184
NlaIII	CATG	1 cut(s)	403
PdmI	GAANNNNTTC	1 cut(s)	20
RsaI	GTAC	1 cut(s)	249
RsaNI	GTAC	1 cut(s)	248
SaqAI	TTAA	3 cut(s)	29, 158, 368
Sau3AI	GATC	1 cut(s)	184
ScrFI	CCNGG	2 cut(s)	311, 312
SduI	GDGCHC	1 cut(s)	228
SfcI	CTRYAG	1 cut(s)	261
SmaI	CCCGGG	1 cut(s)	312
Sse9I	AATT	7 cut(s)	30, 143, 155, 251, 293, 318, 391
SspI	AATATT	1 cut(s)	86
StyD4I	CCNGG	2 cut(s)	309, 310
TaaI	ACNGT	3 cut(s)	218, 247, 384
TasI	AATT	7 cut(s)	30, 143, 155, 251, 293, 318, 391
TatI	WGTACW	1 cut(s)	247
Tru1I	TTAA	3 cut(s)	29, 158, 368
Tru9I	TTAA	3 cut(s)	29, 158, 368
TspDTI	ATGAA	1 cut(s)	54
TspMI	CCCGGG	1 cut(s)	310
XapI	RAATTY	3 cut(s)	143, 293, 391
XmaI	CCCGGG	1 cut(s)	310
XmnI	GAANNNNTTC	1 cut(s)	20

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