Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6D

Orthogroup ID

OG0002308

Physical Location & Seq

Genomic Coordinates Reverse (-)

53892265 .. 53895983

Gene Structure 3719 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6DG333900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 903 bp

ATGGACTCCGAACCCGACTTGCAGAAAACCCCAACAGCCAGGCACAAATGTCCTGCCTGTTACAAGCAATATAAAAAGAAAGAACATCTCATTGAGCACATGAAGGTTGCTTTCCACTCAGCTCATGATCCTAGTTGTGGAGTGTGTAGAAAGCACTGCAAATCTTTTGAGTCATTGAGGGAACATCTTACTGGTCCATTGGCAAAAGCAAATTGCATGAAAATTTTCTCCAAACAAGGGTGTGATTTATGTTTGAAGCTCTTTGATAGCCCTGCTTCTCTTAGCCAGCATAGAGAAATGTGTCTCCTATCTGCACCTGCTCCTATTGGAACAGTGATAATTGCTTGTGCAGAATCTCAATCTTATTTGAACTTGTGTGGTGAAAACCACTTCGATAACCGTCCGGAAGCAATTGCTTTGGATTGTGAAATGGTTGGCGGTGGAAGTGATGGATCACTGGACCTGTGTGCAAGGGTGTGCCTGACAGATGAAGACGAGAATATCCTATTCCACACCTATGTGCGGCCTCAAATTTCTATCACGAATTACAGATATGAAATTACTGGGTTAACAGAAGATCATCTTAGAAATGCCATGCCACTCAAAGAAGTGCACGACAAAATCTTGAAAGTTTTGTACAATGGAGAGTCTATTGGGAGATCAAGTTTGGATGGGGAAAAGGCCAAGCTTCTTGTGGGGCATGATTTGGAGCATGATTTGGATTGCATGGGAATGTATTATCCTGAGCACCTGCTGAGGGATACAGCAAAGTACCATCCACTGATGAAAACAAATCTAGTCAGTCACTCACTTAAGTATCTCACCAGAACATATCTGGGGCAAGTTATTCTTCTTCTCAGACTTTTGCTTTTGTTTTTATATATATATATTTTTTTTTTGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000027 GO:0003674 GO:0003824 GO:0004518 GO:0004527 GO:0006139 GO:0006364 GO:0006396 GO:0006725 GO:0006807 GO:0006996 GO:0008150 GO:0008152 GO:0008408 GO:0009987 GO:0010467 GO:0016043 GO:0016070 GO:0016072 GO:0016787 GO:0016788 GO:0022607 GO:0022613 GO:0022618 GO:0034470 GO:0034622 GO:0034641 GO:0034660 GO:0042254 GO:0042255 GO:0042273 GO:0043170 GO:0043933 GO:0044085 GO:0044237 GO:0044238 GO:0046483 GO:0065003 GO:0070925 GO:0071704 GO:0071826 GO:0071840 GO:0090304 GO:0090305 GO:1901360

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

RNase_T

Protein Analysis

300

Amino Acids

34.06

Weight (kDa)

6.62

Isoelectric Point (pI)

45.31

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNase_T	PF00929	138 - 280	3.7e-09	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)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0002308)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G48100 AT2G48100 AT2G48100 AT2G48100 AT2G48100 AT2G48100 AT2G48100 AT2G48100
fragaria_vesca	FvH4_3g04651 FvH4_3g04651 FvH4_3g04651 FvH4_3g04651 FvH4_3g04651 FvH4_3g04651 FvH4_3g04651 FvH4_3g04651 FvH4_3g04651 FvH4_3g04651 FvH4_3g04651 FvH4_3g04651 FvH4_3g04651 FvH4_3g04651
malus_domestica	MD14G1090000.v1.1 MD14G1090200.v1.1
prunus_persica	Prupe.1G564900_v2.0.a1 Prupe.1G565600_v2.0.a1 Prupe.8G245200_v2.0.a1
pyrus_communis	pycom14g08070 pycom14g08080
rosa_chinensis	RchiOBHm_Chr6g0291701
rosa_laevigata	RLG00000012097
rosa_multiflora	Rmu_sc0002226.1_g000018
rosa_roxburghii	Rroxscaffold_7G00175840
rosa_rugosa	Rorug06G0220700 Rorug06G0220900
rosa_samantha	Rh6AG333500 Rh6BG340300 Rh6BG340500 Rh6CG346700 Rh6DG333800 Rh6DG333900
rosa_wichuraiana	Rw6G029040

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	2 cut(s)	325, 759
Acc36I	ACCTGC	2 cut(s)	325, 759
AccIII	TCCGGA	1 cut(s)	403
AciI	CCGC	2 cut(s)	438, 523
AclWI	GGATC	2 cut(s)	122, 460
AcsI	RAATTY	2 cut(s)	222, 531
AfaI	GTAC	2 cut(s)	638, 773
AfiI	CCNNNNNNNGG	4 cut(s)	137, 237, 522, 757
AflII	CTTAAG	1 cut(s)	812
AgsI	TTSAA	3 cut(s)	256, 370, 628
AjnI	CCWGG	1 cut(s)	38
AleI	CACNNNNGTG	1 cut(s)	518
AluBI	AGCT	3 cut(s)	122, 259, 688
AluI	AGCT	3 cut(s)	122, 259, 688
Alw21I	GWGCWC	3 cut(s)	99, 615, 750
Alw26I	GTCTC	1 cut(s)	308
Alw44I	GTGCAC	1 cut(s)	611
AlwI	GGATC	2 cut(s)	122, 460
Aor13HI	TCCGGA	1 cut(s)	403
AoxI	GGCC	2 cut(s)	524, 681
ApaLI	GTGCAC	1 cut(s)	611
ApoI	RAATTY	2 cut(s)	222, 531
Asp700I	GAANNNNTTC	1 cut(s)	224
AspS9I	GGNCC	2 cut(s)	194, 460
AsuHPI	GGTGA	2 cut(s)	392, 814
AvaII	GGWCC	2 cut(s)	194, 460
BaeGI	GKGCMC	1 cut(s)	615
BaeI	ACNNNNGTAYC	2 cut(s)	800, 833
BbsI	GAAGAC	1 cut(s)	498
Bbv12I	GWGCWC	3 cut(s)	99, 615, 750
BbvCI	CCTCAGC	1 cut(s)	755
BccI	CCATC	3 cut(s)	443, 665, 783
BciT130I	CCWGG	1 cut(s)	40
BciVI	GTATCC	1 cut(s)	754
BcoDI	GTCTC	1 cut(s)	308
BfaI	CTAG	2 cut(s)	132, 797
BfrI	CTTAAG	1 cut(s)	812
BfuAI	ACCTGC	2 cut(s)	325, 759
BfuI	GTATCC	1 cut(s)	754
BisI	GCNGC	1 cut(s)	524
BlsI	GCNGC	1 cut(s)	525
Bme1390I	CCNGG	1 cut(s)	40
Bme18I	GGWCC	2 cut(s)	194, 460
BmgT120I	GGNCC	2 cut(s)	194, 460
BmrFI	CCNGG	1 cut(s)	40
BmrI	ACTGGG	1 cut(s)	573
BmuI	ACTGGG	1 cut(s)	573
BpiI	GAAGAC	1 cut(s)	498
Bpu10I	CCTNAGC	2 cut(s)	744, 755
BsaWI	WCCGGW	1 cut(s)	403
BsaXI	ACNNNNNCTCC	2 cut(s)	649, 679
Bsc4I	CCNNNNNNNGG	4 cut(s)	137, 237, 522, 757
Bse1I	ACTGG	3 cut(s)	196, 462, 568
BseAI	TCCGGA	1 cut(s)	403
BseBI	CCWGG	1 cut(s)	40
BseGI	GGATG	2 cut(s)	676, 775
BseLI	CCNNNNNNNGG	4 cut(s)	137, 237, 522, 757
BseMII	CTCAG	4 cut(s)	132, 735, 746, 871
BseNI	ACTGG	3 cut(s)	196, 462, 568
BseSI	GKGCMC	1 cut(s)	615
BsgI	GTGCAG	2 cut(s)	297, 369
BshFI	GGCC	2 cut(s)	526, 683
BsiHKAI	GWGCWC	3 cut(s)	99, 615, 750
BsiSI	CCGG	1 cut(s)	404
BslI	CCNNNNNNNGG	4 cut(s)	137, 237, 522, 757
BsmAI	GTCTC	1 cut(s)	308
BsnI	GGCC	2 cut(s)	526, 683
Bsp1286I	GDGCHC	3 cut(s)	99, 615, 750
Bsp13I	TCCGGA	1 cut(s)	403
Bsp1407I	TGTACA	1 cut(s)	636
Bsp143I	GATC	4 cut(s)	127, 452, 577, 659
BspACI	CCGC	2 cut(s)	438, 523
BspANI	GGCC	2 cut(s)	526, 683
BspCNI	CTCAG	4 cut(s)	131, 736, 747, 870
BspEI	TCCGGA	1 cut(s)	403
BspHI	TCATGA	1 cut(s)	124
BspMI	ACCTGC	2 cut(s)	325, 759
BspPI	GGATC	2 cut(s)	122, 460
BspTI	CTTAAG	1 cut(s)	812
BsrGI	TGTACA	1 cut(s)	636
BsrI	ACTGG	3 cut(s)	196, 462, 568
BssMI	GATC	4 cut(s)	127, 452, 577, 659
Bst2UI	CCWGG	1 cut(s)	40
Bst4CI	ACNGT	2 cut(s)	334, 401
BstAFI	CTTAAG	1 cut(s)	812
BstAUI	TGTACA	1 cut(s)	636
BstC8I	GCNNGC	1 cut(s)	287
BstDEI	CTNAG	6 cut(s)	118, 281, 584, 744, 755, 857
BstF5I	GGATG	2 cut(s)	676, 775
BstKTI	GATC	4 cut(s)	130, 455, 580, 662
BstMAI	GTCTC	1 cut(s)	308
BstMBI	GATC	4 cut(s)	127, 452, 577, 659
BstNI	CCWGG	1 cut(s)	40
BstSCI	CCNGG	1 cut(s)	38
BstSLI	GKGCMC	1 cut(s)	615
BstV2I	GAAGAC	1 cut(s)	498
BsuI	GTATCC	1 cut(s)	754
BsuRI	GGCC	2 cut(s)	526, 683
BtsCI	GGATG	2 cut(s)	676, 775
BtsI	GCAGTG	1 cut(s)	154
BtsIMutI	CAGTG	4 cut(s)	154, 339, 455, 779
BveI	ACCTGC	2 cut(s)	325, 759
Cac8I	GCNNGC	1 cut(s)	287
CciI	TCATGA	1 cut(s)	124
Cfr13I	GGNCC	2 cut(s)	194, 460
Csp6I	GTAC	2 cut(s)	637, 772
CviAII	CATG	7 cut(s)	100, 125, 217, 595, 701, 713, 727
CviJI	RGCY	8 cut(s)	38, 122, 259, 270, 285, 526, 683, 688
CviKI_1	RGCY	8 cut(s)	38, 122, 259, 270, 285, 526, 683, 688
CviQI	GTAC	2 cut(s)	637, 772
DdeI	CTNAG	6 cut(s)	118, 281, 584, 744, 755, 857
DpnI	GATC	4 cut(s)	129, 454, 579, 661
DpnII	GATC	4 cut(s)	127, 452, 577, 659
Eco47I	GGWCC	2 cut(s)	194, 460
EcoRII	CCWGG	1 cut(s)	38
FaeI	CATG	7 cut(s)	103, 128, 220, 598, 704, 716, 730
FalI	AAGNNNNNCTT	4 cut(s)	567, 599, 834, 866
FatI	CATG	7 cut(s)	99, 124, 216, 594, 700, 712, 726
Fnu4HI	GCNGC	1 cut(s)	524
FokI	GGATG	2 cut(s)	683, 762
Fsp4HI	GCNGC	1 cut(s)	524
FspBI	CTAG	2 cut(s)	132, 797
GluI	GCNGC	1 cut(s)	524
HaeIII	GGCC	2 cut(s)	526, 683
HapII	CCGG	1 cut(s)	404
Hin1II	CATG	7 cut(s)	103, 128, 220, 598, 704, 716, 730
HincII	GTYRAC	1 cut(s)	570
HindII	GTYRAC	1 cut(s)	570
HindIII	AAGCTT	1 cut(s)	686
HinfI	GANTC	4 cut(s)	5, 170, 353, 647
HpaI	GTTAAC	1 cut(s)	570
HpaII	CCGG	1 cut(s)	404
HphI	GGTGA	2 cut(s)	392, 814
Hpy166II	GTNNAC	2 cut(s)	570, 613
Hpy188I	TCNGA	2 cut(s)	10, 860
Hpy188III	TCNNGA	5 cut(s)	125, 404, 541, 625, 743
Hpy8I	GTNNAC	2 cut(s)	570, 613
HpyAV	CCTTC	1 cut(s)	97
HpyCH4III	ACNGT	2 cut(s)	334, 401
HpyCH4V	TGCA	8 cut(s)	22, 159, 216, 314, 350, 470, 613, 726
HpyF3I	CTNAG	6 cut(s)	118, 281, 584, 744, 755, 857
Hsp92II	CATG	7 cut(s)	103, 128, 220, 598, 704, 716, 730
Kpn2I	TCCGGA	1 cut(s)	403
KspAI	GTTAAC	1 cut(s)	570
Kzo9I	GATC	4 cut(s)	127, 452, 577, 659
LmnI	GCTCC	2 cut(s)	325, 709
MaeI	CTAG	2 cut(s)	132, 797
MaeIII	GTNAC	2 cut(s)	59, 803
MalI	GATC	4 cut(s)	129, 454, 579, 661
MboI	GATC	4 cut(s)	127, 452, 577, 659
MboII	GAAGA	4 cut(s)	503, 587, 842, 845
MfeI	CAATTG	1 cut(s)	411
MhlI	GDGCHC	3 cut(s)	99, 615, 750
MluCI	AATT	7 cut(s)	211, 222, 339, 411, 531, 544, 558
MlyI	GAGTC	2 cut(s)	179, 656
MnlI	CCTC	3 cut(s)	171, 537, 750
MroI	TCCGGA	1 cut(s)	403
MroXI	GAANNNNTTC	1 cut(s)	224
MseI	TTAA	2 cut(s)	569, 813
MslI	CAYNNNNRTG	3 cut(s)	516, 518, 731
MspCI	CTTAAG	1 cut(s)	812
MspI	CCGG	1 cut(s)	404
MspR9I	CCNGG	1 cut(s)	40
MunI	CAATTG	1 cut(s)	411
MvaI	CCWGG	1 cut(s)	40
NdeII	GATC	4 cut(s)	127, 452, 577, 659
NlaIII	CATG	7 cut(s)	103, 128, 220, 598, 704, 716, 730
NmuCI	GTSAC	1 cut(s)	803
OliI	CACNNNNGTG	1 cut(s)	518
PagI	TCATGA	1 cut(s)	124
PaqCI	CACCTGC	2 cut(s)	325, 759
PdmI	GAANNNNTTC	1 cut(s)	224
PfeI	GAWTC	1 cut(s)	353
PkrI	GCNGC	1 cut(s)	525
PleI	GAGTC	2 cut(s)	178, 655
PpsI	GAGTC	2 cut(s)	178, 655
Psp6I	CCWGG	1 cut(s)	38
PspGI	CCWGG	1 cut(s)	38
PspPI	GGNCC	2 cut(s)	194, 460
RsaI	GTAC	2 cut(s)	638, 773
RsaNI	GTAC	2 cut(s)	637, 772
RseI	CAYNNNNRTG	3 cut(s)	516, 518, 731
SaqAI	TTAA	2 cut(s)	569, 813
SatI	GCNGC	1 cut(s)	524
Sau3AI	GATC	4 cut(s)	127, 452, 577, 659
Sau96I	GGNCC	2 cut(s)	194, 460
SchI	GAGTC	2 cut(s)	179, 656
ScrFI	CCNGG	1 cut(s)	40
SduI	GDGCHC	3 cut(s)	99, 615, 750
SetI	ASST	8 cut(s)	108, 124, 261, 319, 465, 518, 690, 753
SinI	GGWCC	2 cut(s)	194, 460
SmiMI	CAYNNNNRTG	3 cut(s)	516, 518, 731
SmlI	CTYRAG	1 cut(s)	812
SmoI	CTYRAG	1 cut(s)	812
Sse9I	AATT	7 cut(s)	211, 222, 339, 411, 531, 544, 558
SsiI	CCGC	2 cut(s)	438, 523
SspMI	CTAG	2 cut(s)	132, 797
StyD4I	CCNGG	1 cut(s)	38
TaaI	ACNGT	2 cut(s)	334, 401
TaqI	TCGA	1 cut(s)	393
TasI	AATT	7 cut(s)	211, 222, 339, 411, 531, 544, 558
TatI	WGTACW	1 cut(s)	636
TauI	GCSGC	1 cut(s)	526
TfiI	GAWTC	1 cut(s)	353
Tru1I	TTAA	2 cut(s)	569, 813
Tru9I	TTAA	2 cut(s)	569, 813
TscAI	CASTG	4 cut(s)	161, 339, 462, 786
TseFI	GTSAC	1 cut(s)	803
Tsp45I	GTSAC	1 cut(s)	803
TspDTI	ATGAA	5 cut(s)	116, 233, 504, 570, 800
TspRI	CASTG	4 cut(s)	161, 339, 462, 786
Vha464I	CTTAAG	1 cut(s)	812
VneI	GTGCAC	1 cut(s)	611
VpaK11BI	GGWCC	2 cut(s)	194, 460
XapI	RAATTY	2 cut(s)	222, 531
XcmI	CCANNNNNNNNNTGG	2 cut(s)	691, 832
XmnI	GAANNNNTTC	1 cut(s)	224
XspI	CTAG	2 cut(s)	132, 797

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