Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0008633

Physical Location & Seq

Genomic Coordinates Reverse (-)

26046426 .. 26051550

Gene Structure 5125 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG229900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 819 bp

ATGTCATTCCCAAGAGCCATAGTGACTCGGCCTCTGCTTCCGCTACTCTTCTCTACCACTCTTACTAAACCCTTCATCAAAACCTCTCGCCCACTCCCTTCAATGCGTCCCTTCACCGCCTTTGCCTCCCTCCCTGCTTCCCAACAAGTCGGCGAGCCGTCCACTCCGGCATTCCCAGCTCCGGAAAGGAGCGGCGAGAGGTGGAAGCCCATGTGCTTGTACTACACACAAGGGAAATGCACCATGATGGAGGATCCTGCCCACATGGAGAAGTTCAATCATGATTGCTCCAGAGATCTTCAAGTGAAAAATTCCATGTCAAACCTCATTTGCTCTCAGCACTTGGATTATTTTCTTGTGCTTGATCTGGAGGGAAAAATTGAAATTCTTGAGTTTCCAGTTCTAATCATTGATGCAAAAACCATGAATGTCGTTGATTTTTTTCACAGGTTTGTAAGGCCAACGGAGATGAGCGAGAAAAGGATAAATGAATATATTGAAGGAAAGTATGGCAAATTTGGAGTTGACCGTGTTTGGCATGACACAGCTATACCATTTAAGAATGTTCTTCAACAATTTGAAGAATGGTTAACTCAGCATCAACTGTGGAGAGAAGAGGTGGGCGGGTGTCTTAATCAAGCAGCATTCGTAACTTGTGGAAACTGGGATTTGAAAACAAAAGTTCCTGAACAATGCAAAGTGGCAAAGGTGAAGCTTCCGTCATATTTTATGGAATGGATCAATCTCAAAGATGTCTATCTAAATTTTTACAAGAGAAGGGTACTGTTCACTCAATTTATATTTTCTTTAGTGATTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0004518 GO:0004519 GO:0004521 GO:0004540 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009892 GO:0009987 GO:0010468 GO:0010605 GO:0010608 GO:0010629 GO:0016070 GO:0016441 GO:0016458 GO:0016787 GO:0016788 GO:0016891 GO:0016893 GO:0019219 GO:0019222 GO:0031047 GO:0031323 GO:0034641 GO:0035194 GO:0040029 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044238 GO:0044424 GO:0044444 GO:0044464 GO:0046483 GO:0048519 GO:0048583 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0060147 GO:0060255 GO:0060966 GO:0060968 GO:0065007 GO:0070920 GO:0071704 GO:0080090 GO:0090065 GO:0090304 GO:0090305 GO:0090501 GO:0090502 GO:0140098 GO:1900368 GO:1901360

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

RNase_T

Protein Analysis

272

Amino Acids

31.77

Weight (kDa)

8.6

Isoelectric Point (pI)

48.96

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNase_T	PF00929	122 - 260	8.8e-06	Exonuclease

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)

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Publication-ready

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Orthologous Genes (Group: OG0008633)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G15140 AT3G15140
fragaria_vesca	FvH4_3g19250 FvH4_3g19250 FvH4_3g19250 FvH4_3g19250 FvH4_3g19250 FvH4_3g19250 FvH4_3g19250 FvH4_3g19250
malus_domestica	MD11G1255900.v1.1
prunus_persica	Prupe.4G173900_v2.0.a1
pyrus_communis	pycom11g22620
rosa_chinensis	RchiOBHm_Chr5g0032321
rosa_laevigata	RLG00000033385
rosa_roxburghii	Rroxscaffold_1G00048100
rosa_rugosa	Rorug05G0130800 Rorug05G0130900
rosa_samantha	Rh5AG224300 Rh5BG225200 Rh5CG250700 Rh5DG229900
rosa_wichuraiana	Rw5G020490

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccBSI	CCGCTC	1 cut(s)	192
AccIII	TCCGGA	1 cut(s)	181
AciI	CCGC	4 cut(s)	41, 117, 192, 624
AclWI	GGATC	3 cut(s)	248, 261, 746
AcsI	RAATTY	4 cut(s)	310, 384, 515, 763
AfaI	GTAC	2 cut(s)	221, 783
AfiI	CCNNNNNNNGG	1 cut(s)	181
AgsI	TTSAA	8 cut(s)	102, 277, 302, 383, 500, 572, 581, 673
AluBI	AGCT	3 cut(s)	179, 548, 715
AluI	AGCT	3 cut(s)	179, 548, 715
AlwI	GGATC	3 cut(s)	248, 261, 746
Aor13HI	TCCGGA	1 cut(s)	181
AoxI	GGCC	2 cut(s)	29, 458
ApeKI	GCWGC	1 cut(s)	641
ApoI	RAATTY	4 cut(s)	310, 384, 515, 763
AsuHPI	GGTGA	2 cut(s)	106, 721
BamHI	GGATCC	1 cut(s)	253
BbvI	GCAGC	1 cut(s)	653
BccI	CCATC	1 cut(s)	241
BceAI	ACGGC	1 cut(s)	142
BglII	AGATCT	1 cut(s)	295
BisI	GCNGC	2 cut(s)	193, 642
BlsI	GCNGC	2 cut(s)	194, 643
BmiI	GGNNCC	1 cut(s)	255
BmrI	ACTGGG	1 cut(s)	673
BmsI	GCATC	2 cut(s)	403, 607
BmuI	ACTGGG	1 cut(s)	673
BpmI	CTGGAG	2 cut(s)	274, 389
BpuEI	CTTGAG	1 cut(s)	410
BsaBI	GATNNNNATC	1 cut(s)	756
BsaWI	WCCGGW	1 cut(s)	181
Bsc4I	CCNNNNNNNGG	1 cut(s)	181
Bse1I	ACTGG	2 cut(s)	398, 668
Bse8I	GATNNNNATC	1 cut(s)	756
BseAI	TCCGGA	1 cut(s)	181
BseJI	GATNNNNATC	1 cut(s)	756
BseLI	CCNNNNNNNGG	1 cut(s)	181
BseMII	CTCAG	2 cut(s)	350, 608
BseNI	ACTGG	2 cut(s)	398, 668
BseXI	GCAGC	1 cut(s)	653
BseYI	CCCAGC	1 cut(s)	175
BshFI	GGCC	2 cut(s)	31, 460
BsiSI	CCGG	2 cut(s)	167, 182
BslFI	GGGAC	1 cut(s)	93
BslI	CCNNNNNNNGG	1 cut(s)	181
BsmFI	GGGAC	1 cut(s)	93
BsmI	GAATGC	2 cut(s)	170, 644
BsnI	GGCC	2 cut(s)	31, 460
Bsp13I	TCCGGA	1 cut(s)	181
Bsp143I	GATC	4 cut(s)	253, 295, 364, 738
BspACI	CCGC	4 cut(s)	41, 117, 192, 624
BspANI	GGCC	2 cut(s)	31, 460
BspCNI	CTCAG	2 cut(s)	349, 607
BspEI	TCCGGA	1 cut(s)	181
BspHI	TCATGA	1 cut(s)	280
BspLI	GGNNCC	1 cut(s)	255
BspPI	GGATC	3 cut(s)	248, 261, 746
BsrBI	CCGCTC	1 cut(s)	192
BsrI	ACTGG	2 cut(s)	398, 668
BssMI	GATC	4 cut(s)	253, 295, 364, 738
Bst4CI	ACNGT	3 cut(s)	530, 606, 786
Bst6I	CTCTTC	2 cut(s)	53, 609
BstC8I	GCNNGC	1 cut(s)	155
BstDEI	CTNAG	2 cut(s)	336, 594
BstKTI	GATC	4 cut(s)	256, 298, 367, 741
BstMBI	GATC	4 cut(s)	253, 295, 364, 738
BstMWI	GCNNNNNNNGC	1 cut(s)	176
BstV1I	GCAGC	1 cut(s)	653
BstX2I	RGATCY	2 cut(s)	253, 295
BstYI	RGATCY	2 cut(s)	253, 295
BsuRI	GGCC	2 cut(s)	31, 460
Cac8I	GCNNGC	1 cut(s)	155
CciI	TCATGA	1 cut(s)	280
CseI	GACGC	1 cut(s)	95
Csp6I	GTAC	2 cut(s)	220, 782
CviAII	CATG	7 cut(s)	211, 244, 265, 281, 316, 424, 539
CviJI	RGCY	8 cut(s)	17, 31, 157, 179, 208, 460, 548, 715
CviKI_1	RGCY	8 cut(s)	17, 31, 157, 179, 208, 460, 548, 715
CviQI	GTAC	2 cut(s)	220, 782
DdeI	CTNAG	2 cut(s)	336, 594
DpnI	GATC	4 cut(s)	255, 297, 366, 740
DpnII	GATC	4 cut(s)	253, 295, 364, 738
Eam1104I	CTCTTC	2 cut(s)	53, 609
EarI	CTCTTC	2 cut(s)	53, 609
FaeI	CATG	7 cut(s)	214, 247, 268, 284, 319, 427, 542
FaqI	GGGAC	1 cut(s)	93
FatI	CATG	7 cut(s)	210, 243, 264, 280, 315, 423, 538
FauI	CCCGC	1 cut(s)	617
Fnu4HI	GCNGC	2 cut(s)	193, 642
Fsp4HI	GCNGC	2 cut(s)	193, 642
GluI	GCNGC	2 cut(s)	193, 642
GsaI	CCCAGC	1 cut(s)	179
GsuI	CTGGAG	2 cut(s)	274, 389
HaeIII	GGCC	2 cut(s)	31, 460
HapII	CCGG	2 cut(s)	167, 182
HgaI	GACGC	1 cut(s)	95
Hin1II	CATG	7 cut(s)	214, 247, 268, 284, 319, 427, 542
HincII	GTYRAC	2 cut(s)	526, 591
HindII	GTYRAC	2 cut(s)	526, 591
HindIII	AAGCTT	1 cut(s)	713
HinfI	GANTC	1 cut(s)	25
HpaI	GTTAAC	1 cut(s)	591
HpaII	CCGG	2 cut(s)	167, 182
HphI	GGTGA	2 cut(s)	106, 721
Hpy166II	GTNNAC	4 cut(s)	162, 526, 591, 789
Hpy188III	TCNNGA	6 cut(s)	182, 281, 291, 368, 389, 686
Hpy8I	GTNNAC	4 cut(s)	162, 526, 591, 789
HpyAV	CCTTC	5 cut(s)	82, 108, 121, 494, 771
HpyCH4III	ACNGT	3 cut(s)	530, 606, 786
HpyCH4V	TGCA	3 cut(s)	240, 416, 696
HpyF10VI	GCNNNNNNNGC	1 cut(s)	176
HpyF3I	CTNAG	2 cut(s)	336, 594
Hsp92II	CATG	7 cut(s)	214, 247, 268, 284, 319, 427, 542
Kpn2I	TCCGGA	1 cut(s)	181
KspAI	GTTAAC	1 cut(s)	591
Kzo9I	GATC	4 cut(s)	253, 295, 364, 738
LmnI	GCTCC	3 cut(s)	184, 189, 293
Lsp1109I	GCAGC	1 cut(s)	653
LweI	GCATC	2 cut(s)	403, 607
MaeIII	GTNAC	2 cut(s)	22, 649
MalI	GATC	4 cut(s)	255, 297, 366, 740
MbiI	CCGCTC	1 cut(s)	192
MboI	GATC	4 cut(s)	253, 295, 364, 738
MboII	GAAGA	5 cut(s)	40, 290, 560, 593, 626
MflI	RGATCY	2 cut(s)	253, 295
MluCI	AATT	7 cut(s)	310, 378, 384, 515, 575, 763, 794
MlyI	GAGTC	1 cut(s)	19
MnlI	CCTC	9 cut(s)	42, 94, 136, 140, 192, 244, 335, 364, 610
MroI	TCCGGA	1 cut(s)	181
MseI	TTAA	4 cut(s)	558, 590, 633, 817
MslI	CAYNNNNRTG	1 cut(s)	245
MspI	CCGG	2 cut(s)	167, 182
Mva1269I	GAATGC	2 cut(s)	170, 644
MwoI	GCNNNNNNNGC	1 cut(s)	176
NdeII	GATC	4 cut(s)	253, 295, 364, 738
NlaIII	CATG	7 cut(s)	214, 247, 268, 284, 319, 427, 542
NlaIV	GGNNCC	1 cut(s)	255
NmeAIII	GCCGAG	1 cut(s)	7
NmuCI	GTSAC	1 cut(s)	22
PagI	TCATGA	1 cut(s)	280
PctI	GAATGC	2 cut(s)	170, 644
PkrI	GCNGC	2 cut(s)	194, 643
PleI	GAGTC	1 cut(s)	19
PpsI	GAGTC	1 cut(s)	19
PspFI	CCCAGC	1 cut(s)	175
PspN4I	GGNNCC	1 cut(s)	255
PsuI	RGATCY	2 cut(s)	253, 295
RsaI	GTAC	2 cut(s)	221, 783
RsaNI	GTAC	2 cut(s)	220, 782
RseI	CAYNNNNRTG	1 cut(s)	245
SaqAI	TTAA	4 cut(s)	558, 590, 633, 817
SatI	GCNGC	2 cut(s)	193, 642
Sau3AI	GATC	4 cut(s)	253, 295, 364, 738
SchI	GAGTC	1 cut(s)	19
SetI	ASST	9 cut(s)	86, 181, 203, 327, 452, 550, 621, 711, 717
SfaNI	GCATC	2 cut(s)	403, 607
SmiMI	CAYNNNNRTG	1 cut(s)	245
SmlI	CTYRAG	1 cut(s)	389
SmoI	CTYRAG	1 cut(s)	389
Sse9I	AATT	7 cut(s)	310, 378, 384, 515, 575, 763, 794
SsiI	CCGC	4 cut(s)	41, 117, 192, 624
TaaI	ACNGT	3 cut(s)	530, 606, 786
TasI	AATT	7 cut(s)	310, 378, 384, 515, 575, 763, 794
TatI	WGTACW	1 cut(s)	219
TauI	GCSGC	1 cut(s)	195
Tru1I	TTAA	4 cut(s)	558, 590, 633, 817
Tru9I	TTAA	4 cut(s)	558, 590, 633, 817
TseFI	GTSAC	1 cut(s)	22
TseI	GCWGC	1 cut(s)	641
Tsp45I	GTSAC	1 cut(s)	22
TspDTI	ATGAA	3 cut(s)	64, 440, 504
TspGWI	ACGGA	2 cut(s)	479, 708
XapI	RAATTY	4 cut(s)	310, 384, 515, 763

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