Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6A

Orthogroup ID

OG0016210

Physical Location & Seq

Genomic Coordinates Reverse (-)

51840247 .. 51841699

Gene Structure 1453 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6AG319000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1275 bp

ATGGCTACTCCGTCTCCACACAGTTACACCACTCTTTCTGCCGTCCAATTCCGACCCATGTTGAACAAAGCCCAGCTAAACCCAGCTCTCCATTTCTTCAAATTCTCCGAAAAGCCCACCAAATTATTACCTTCCTTGAAGCAGGTTTGCGATGAAGGCAGGCTCAGGGAAGCTTTTACATCACTCAGCAATTTGCTAACCCATCAAGATTCACTCGAGCTTTCTTTAGATGGAGCTTACTCGCCGCTCCTTGAGCTCTGTGCAAAGAGGAAGGCTCTATCAGAAGGGCAGCAAATCCATGCCCACTTGATTAAATCTGGTGCTGTATGGGATTCCGCGTTTCTGAGTACCAAGCTTGTTCACATGTACGGGAAATGTGGCTCCGTTACGAATGCACAGAAGGTGTTTGATAAAATGTCTCACAGAACGATTTTCACTTGGAACGCAATGATTGGTGCTTGTGCGTCAAACGGGGAGCCTCTAAAGGCTCTTGAGATGTACTGTGACATGCGGGTTCTCGGGGTTCCTCTTGATTCGTTTACTTTCCCTTGCGTACTGAAAGCATGTGTTGCAGTTAATAGTCTCTGTTGTGGGGAAGAAATTCACGGCCTGGCTATCAAATGTGGGTATGATGATGTAGCATTTGTGGTTAACTCGCTAGTTGCAATGTATGCAAACTGCAATGATCTTGGTGCGGCGAGGAAATTGTTTGATGGTATGAGAGAAAAGGAGGATGTTGTGTCATGGAATTCTATTATTTCAGCATATTCAGCAAAGGGGATGTCCGTTGAAGCGTTGGGATTGTTTCGAGAAATGCAGCAGGTGGGACTTGCCATGAACACGTATACTTTTGTGGCTGCCCTTCAAGCGTGTGAGGATTCTTTTTGTGGAAAACTCGGTATGGAGATTCATGCTGCTGTGTTGAAACTGAATTATTGTTTTGATATTTATGTGGCGAATTCTCTGCTTGCAATGTATGTGAGGTGTGGTAAAATGGATGAGGCTGCAAGGATTTTTAATGACTTGGATGACAAGGATATTGTCTCATGGAATACATTACTCTCTGGTTTTGTCCAAAATGGACTATATGAGGAAGCCCTGCTGTTGTTCCATGATATGCAGAGGATTGGTCATAAACCTGACCAGGTTTCGTTGTTGAATATCCTTGCAGCATCTGGTCGGTTAGGAAGTTTATTGTCAGGAATGGAAGCTCATGCTTATGCGATAAAAAATGGATTCGATTCTGATTTGCAGGGCTGGAAGCGGATGCGATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006139 GO:0006396 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009507 GO:0009536 GO:0009987 GO:0010467 GO:0016070 GO:0016787 GO:0016788 GO:0031425 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044424 GO:0044444 GO:0044464 GO:0046483 GO:0071704 GO:0090304 GO:0090305 GO:0097159 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DYW_deaminase PPR PPR_2

Protein Analysis

424

Amino Acids

46.79

Weight (kDa)

6.46

Isoelectric Point (pI)

32.95

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	143 - 190	2.6e-10	PPR repeat family
PPR	PF01535	145 - 175	1e-07	PPR repeat
PPR_2	PF13041	245 - 291	8e-11	PPR repeat family
PPR	PF01535	247 - 276	5.8e-08	PPR repeat
PPR_2	PF13041	345 - 384	2.9e-10	PPR repeat family
PPR	PF01535	348 - 377	6.7e-09	PPR repeat

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: OG0016210)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G63370 AT3G63370
fragaria_vesca	FvH4_2g22910
malus_domestica	MD11G1278400.v1.1
prunus_persica	Prupe.8G234400_v2.0.a1
pyrus_communis	pycom11g24590
rosa_chinensis	RchiOBHm_Chr6g0289871
rosa_laevigata	RLG00000012263
rosa_multiflora	Rmu_ssc0000314.1_g000006
rosa_rugosa	Rorug06G0207400
rosa_samantha	Rh6AG319000 Rh6BG326000 Rh6CG331900 Rh6DG317400
rosa_wichuraiana	Rw6G027510

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	811
Acc36I	ACCTGC	2 cut(s)	133, 811
AccBSI	CCGCTC	1 cut(s)	247
AccI	GTMKAC	1 cut(s)	845
AccII	CGCG	1 cut(s)	338
AciI	CCGC	5 cut(s)	245, 336, 511, 695, 1264
AcsI	RAATTY	4 cut(s)	101, 600, 748, 958
AfaI	GTAC	4 cut(s)	349, 368, 500, 555
AflIII	ACRYGT	2 cut(s)	363, 840
AgsI	TTSAA	7 cut(s)	64, 100, 139, 791, 866, 925, 1159
AjnI	CCWGG	2 cut(s)	609, 1143
AluBI	AGCT	8 cut(s)	76, 86, 173, 220, 236, 256, 355, 1211
AluI	AGCT	8 cut(s)	76, 86, 173, 220, 236, 256, 355, 1211
Alw21I	GWGCWC	1 cut(s)	258
Alw26I	GTCTC	4 cut(s)	18, 423, 587, 1048
AlwNI	CAGNNNCTG	1 cut(s)	1175
Ama87I	CYCGRG	2 cut(s)	215, 518
AoxI	GGCC	1 cut(s)	607
ApeKI	GCWGC	6 cut(s)	289, 817, 857, 914, 1004, 1169
ApoI	RAATTY	4 cut(s)	101, 600, 748, 958
ArsI	GACNNNNNNTTYG	2 cut(s)	767, 799
Asp700I	GAANNNNTTC	1 cut(s)	600
AvaI	CYCGRG	2 cut(s)	215, 518
BanII	GRGCYC	1 cut(s)	258
Bbv12I	GWGCWC	1 cut(s)	258
BbvI	GCAGC	6 cut(s)	301, 829, 844, 901, 991, 1181
BccI	CCATC	3 cut(s)	210, 224, 707
BceAI	ACGGC	2 cut(s)	26, 622
BcgI	CGANNNNNNTGC	2 cut(s)	946, 980
BciT130I	CCWGG	2 cut(s)	611, 1145
BcoDI	GTCTC	4 cut(s)	18, 423, 587, 1048
BfaI	CTAG	1 cut(s)	659
BfuAI	ACCTGC	2 cut(s)	133, 811
BisI	GCNGC	8 cut(s)	245, 290, 696, 818, 858, 915, 1005, 1170
BlsI	GCNGC	8 cut(s)	246, 291, 697, 819, 859, 916, 1006, 1171
Bme1390I	CCNGG	2 cut(s)	611, 1145
BmeT110I	CYCGRG	2 cut(s)	215, 518
BmiI	GGNNCC	3 cut(s)	382, 477, 525
BmrFI	CCNGG	2 cut(s)	611, 1145
BmsI	GCATC	2 cut(s)	1181, 1257
BplI	GAGNNNNNCTC	2 cut(s)	259, 291
Bpu10I	CCTNAGC	1 cut(s)	164
BpuEI	CTTGAG	2 cut(s)	272, 512
BsaAI	YACGTR	1 cut(s)	843
BsaXI	ACNNNNNCTCC	1 cut(s)	28
Bse3DI	GCAATG	4 cut(s)	453, 672, 688, 978
BseBI	CCWGG	2 cut(s)	611, 1145
BseGI	GGATG	5 cut(s)	739, 786, 1003, 1033, 1272
BseMI	GCAATG	4 cut(s)	453, 672, 688, 978
BseMII	CTCAG	3 cut(s)	178, 199, 335
BseXI	GCAGC	6 cut(s)	301, 829, 844, 901, 991, 1181
BseYI	CCCAGC	2 cut(s)	72, 82
Bsh1236I	CGCG	1 cut(s)	338
BshFI	GGCC	1 cut(s)	609
BsiHKAI	GWGCWC	1 cut(s)	258
BsiHKCI	CYCGRG	2 cut(s)	215, 518
BslFI	GGGAC	1 cut(s)	840
BsmAI	GTCTC	4 cut(s)	18, 423, 587, 1048
BsmBI	CGTCTC	1 cut(s)	18
BsmFI	GGGAC	1 cut(s)	840
BsmI	GAATGC	1 cut(s)	397
BsnI	GGCC	1 cut(s)	609
BsoBI	CYCGRG	2 cut(s)	215, 518
Bsp1286I	GDGCHC	1 cut(s)	258
Bsp143I	GATC	1 cut(s)	685
BspACI	CCGC	5 cut(s)	245, 336, 511, 695, 1264
BspANI	GGCC	1 cut(s)	609
BspCNI	CTCAG	3 cut(s)	177, 198, 336
BspFNI	CGCG	1 cut(s)	338
BspLI	GGNNCC	3 cut(s)	382, 477, 525
BspMI	ACCTGC	2 cut(s)	133, 811
BsrBI	CCGCTC	1 cut(s)	247
BsrDI	GCAATG	4 cut(s)	453, 672, 688, 978
BssMI	GATC	1 cut(s)	685
BssNAI	GTATAC	1 cut(s)	846
Bst1107I	GTATAC	1 cut(s)	846
Bst2UI	CCWGG	2 cut(s)	611, 1145
Bst4CI	ACNGT	2 cut(s)	23, 503
BstAPI	GCANNNNNTGC	2 cut(s)	569, 671
BstBAI	YACGTR	1 cut(s)	843
BstC8I	GCNNGC	2 cut(s)	161, 969
BstDEI	CTNAG	3 cut(s)	164, 185, 344
BstF5I	GGATG	5 cut(s)	739, 786, 1003, 1033, 1272
BstFNI	CGCG	1 cut(s)	338
BstKTI	GATC	1 cut(s)	688
BstMAI	GTCTC	4 cut(s)	18, 423, 587, 1048
BstMBI	GATC	1 cut(s)	685
BstMWI	GCNNNNNNNGC	6 cut(s)	156, 253, 569, 671, 770, 866
BstNI	CCWGG	2 cut(s)	611, 1145
BstNSI	RCATGY	3 cut(s)	367, 511, 567
BstSCI	CCNGG	2 cut(s)	609, 1143
BstUI	CGCG	1 cut(s)	338
BstV1I	GCAGC	6 cut(s)	301, 829, 844, 901, 991, 1181
BstZ17I	GTATAC	1 cut(s)	846
BsuRI	GGCC	1 cut(s)	609
BtgZI	GCGATG	1 cut(s)	165
BtsCI	GGATG	5 cut(s)	739, 786, 1003, 1033, 1272
BveI	ACCTGC	2 cut(s)	133, 811
Cac8I	GCNNGC	2 cut(s)	161, 969
CaiI	CAGNNNCTG	1 cut(s)	1175
CseI	GACGC	1 cut(s)	453
CsiI	ACCWGGT	1 cut(s)	1143
Csp6I	GTAC	4 cut(s)	348, 367, 499, 554
CviQI	GTAC	4 cut(s)	348, 367, 499, 554
DdeI	CTNAG	3 cut(s)	164, 185, 344
DpnI	GATC	1 cut(s)	687
DpnII	GATC	1 cut(s)	685
Ecl136II	GAGCTC	1 cut(s)	256
Eco24I	GRGCYC	1 cut(s)	258
Eco53kI	GAGCTC	1 cut(s)	256
Eco88I	CYCGRG	2 cut(s)	215, 518
EcoICRI	GAGCTC	1 cut(s)	256
EcoRI	GAATTC	2 cut(s)	748, 958
EcoRII	CCWGG	2 cut(s)	609, 1143
EcoT38I	GRGCYC	1 cut(s)	258
Esp3I	CGTCTC	1 cut(s)	18
FaqI	GGGAC	1 cut(s)	840
FauI	CCCGC	1 cut(s)	504
FblI	GTMKAC	1 cut(s)	845
Fnu4HI	GCNGC	8 cut(s)	245, 290, 696, 818, 858, 915, 1005, 1170
FokI	GGATG	4 cut(s)	746, 793, 1010, 1040
FriOI	GRGCYC	1 cut(s)	258
Fsp4HI	GCNGC	8 cut(s)	245, 290, 696, 818, 858, 915, 1005, 1170
FspBI	CTAG	1 cut(s)	659
GluI	GCNGC	8 cut(s)	245, 290, 696, 818, 858, 915, 1005, 1170
GsaI	CCCAGC	2 cut(s)	76, 86
HaeIII	GGCC	1 cut(s)	609
HgaI	GACGC	1 cut(s)	453
HincII	GTYRAC	1 cut(s)	652
HindII	GTYRAC	1 cut(s)	652
HindIII	AAGCTT	2 cut(s)	171, 353
HinfI	GANTC	7 cut(s)	209, 332, 533, 878, 907, 1236, 1241
HpaI	GTTAAC	1 cut(s)	652
Hpy166II	GTNNAC	4 cut(s)	361, 540, 652, 846
Hpy188I	TCNGA	5 cut(s)	53, 109, 283, 345, 1246
Hpy188III	TCNNGA	5 cut(s)	206, 491, 530, 809, 1200
Hpy8I	GTNNAC	4 cut(s)	361, 540, 652, 846
HpyAV	CCTTC	6 cut(s)	141, 149, 265, 278, 394, 872
HpyCH4III	ACNGT	2 cut(s)	23, 503
HpyCH4IV	ACGT	1 cut(s)	842
HpyF10VI	GCNNNNNNNGC	6 cut(s)	156, 253, 569, 671, 770, 866
HpyF3I	CTNAG	3 cut(s)	164, 185, 344
HpySE526I	ACGT	1 cut(s)	842
KspAI	GTTAAC	1 cut(s)	652
Kzo9I	GATC	1 cut(s)	685
LmnI	GCTCC	4 cut(s)	233, 252, 386, 475
Lsp1109I	GCAGC	6 cut(s)	301, 829, 844, 901, 991, 1181
LweI	GCATC	2 cut(s)	1181, 1257
MabI	ACCWGGT	1 cut(s)	1143
MaeI	CTAG	1 cut(s)	659
MaeII	ACGT	1 cut(s)	842
MaeIII	GTNAC	3 cut(s)	23, 385, 503
MalI	GATC	1 cut(s)	687
MbiI	CCGCTC	1 cut(s)	247
MboI	GATC	1 cut(s)	685
MboII	GAAGA	2 cut(s)	88, 608
MhlI	GDGCHC	1 cut(s)	258
MluCI	AATT	9 cut(s)	47, 101, 122, 190, 600, 704, 748, 931, 958
MmeI	TCCRAC	1 cut(s)	76
MroXI	GAANNNNTTC	1 cut(s)	600
MseI	TTAA	4 cut(s)	312, 576, 651, 1017
MslI	CAYNNNNRTG	1 cut(s)	1218
MspR9I	CCNGG	2 cut(s)	611, 1145
Mva1269I	GAATGC	1 cut(s)	397
MvaI	CCWGG	2 cut(s)	611, 1145
MvnI	CGCG	1 cut(s)	338
MwoI	GCNNNNNNNGC	6 cut(s)	156, 253, 569, 671, 770, 866
NdeII	GATC	1 cut(s)	685
NlaIV	GGNNCC	3 cut(s)	382, 477, 525
NmuCI	GTSAC	1 cut(s)	503
NspI	RCATGY	3 cut(s)	367, 511, 567
PaeR7I	CTCGAG	1 cut(s)	215
PaqCI	CACCTGC	1 cut(s)	811
PciI	ACATGT	1 cut(s)	363
PctI	GAATGC	1 cut(s)	397
PdmI	GAANNNNTTC	1 cut(s)	600
PfeI	GAWTC	7 cut(s)	209, 332, 533, 878, 907, 1236, 1241
PkrI	GCNGC	8 cut(s)	246, 291, 697, 819, 859, 916, 1006, 1171
Ppu21I	YACGTR	1 cut(s)	843
PscI	ACATGT	1 cut(s)	363
Psp124BI	GAGCTC	1 cut(s)	258
Psp6I	CCWGG	2 cut(s)	609, 1143
PspFI	CCCAGC	2 cut(s)	72, 82
PspGI	CCWGG	2 cut(s)	609, 1143
PspN4I	GGNNCC	3 cut(s)	382, 477, 525
PspXI	VCTCGAGB	1 cut(s)	215
PstNI	CAGNNNCTG	1 cut(s)	1175
RsaI	GTAC	4 cut(s)	349, 368, 500, 555
RsaNI	GTAC	4 cut(s)	348, 367, 499, 554
RseI	CAYNNNNRTG	1 cut(s)	1218
SacI	GAGCTC	1 cut(s)	258
SaqAI	TTAA	4 cut(s)	312, 576, 651, 1017
SatI	GCNGC	8 cut(s)	245, 290, 696, 818, 858, 915, 1005, 1170
Sau3AI	GATC	1 cut(s)	685
ScrFI	CCNGG	2 cut(s)	611, 1145
SduI	GDGCHC	1 cut(s)	258
SexAI	ACCWGGT	1 cut(s)	1143
SfaNI	GCATC	2 cut(s)	1181, 1257
Sfr274I	CTCGAG	1 cut(s)	215
SlaI	CTCGAG	1 cut(s)	215
SmiMI	CAYNNNNRTG	1 cut(s)	1218
SmlI	CTYRAG	3 cut(s)	215, 251, 491
SmoI	CTYRAG	3 cut(s)	215, 251, 491
Sse9I	AATT	9 cut(s)	47, 101, 122, 190, 600, 704, 748, 931, 958
SsiI	CCGC	5 cut(s)	245, 336, 511, 695, 1264
SspMI	CTAG	1 cut(s)	659
SstI	GAGCTC	1 cut(s)	258
StyD4I	CCNGG	2 cut(s)	609, 1143
TaaI	ACNGT	2 cut(s)	23, 503
TaiI	ACGT	1 cut(s)	845
TaqI	TCGA	3 cut(s)	216, 808, 1239
TasI	AATT	9 cut(s)	47, 101, 122, 190, 600, 704, 748, 931, 958
TatI	WGTACW	1 cut(s)	498
TauI	GCSGC	2 cut(s)	247, 698
TfiI	GAWTC	7 cut(s)	209, 332, 533, 878, 907, 1236, 1241
Tru1I	TTAA	4 cut(s)	312, 576, 651, 1017
Tru9I	TTAA	4 cut(s)	312, 576, 651, 1017
TseFI	GTSAC	1 cut(s)	503
TseI	GCWGC	6 cut(s)	289, 817, 857, 914, 1004, 1169
Tsp45I	GTSAC	1 cut(s)	503
TspDTI	ATGAA	3 cut(s)	168, 851, 899
TspGWI	ACGGA	2 cut(s)	373, 775
XapI	RAATTY	4 cut(s)	101, 600, 748, 958
XceI	RCATGY	3 cut(s)	367, 511, 567
XhoI	CTCGAG	1 cut(s)	215
XmiI	GTMKAC	1 cut(s)	845
XmnI	GAANNNNTTC	1 cut(s)	600
XspI	CTAG	1 cut(s)	659

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