Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4B

Orthogroup ID

OG0006344

Physical Location & Seq

Genomic Coordinates Reverse (-)

3137445 .. 3138317

Gene Structure 873 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4BG020300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 873 bp

ATGCTTGCGAAGCTCCAGCTGGACTTCCCCGTTTTGGGTTCCACGAGGACCTCACCCAACACAGTACTCCCTCCACTGGAGAAACTCGAACTCATAACCAGAGATAGGAAGCAGAGAGTGCTTCACGGAGGAGGGTTCAAGAAGGGTTTTGGTGAAGTTTGTAGACCCAGACATAGTAATGGTGGCAGTGTTGTTGTTCATGAAGTTGGGTTGAAGAAGCGTGGTTTTGTGAAGAACCCAGATGAGGAAGAGGGATTAGAGAATCTGGGTGATGGTGGGTTTGTGGAAAGAAAGGATTTTGGGGTTGAATTGGGGTTGGGGGGTGGGAATGGTGTGGTGAAGAAAGTGCAGACCAAGTGTTCGACGAAATGGCTGAGTTACGGCGGGTGCATTCCGGCAATGTTGACGGCGTTGGAGGAAGTTGAGGACTTGGATGAGGCTCTGGGGCCGTGGGGAGAGACGCTTAGTAACAAGGAAAGGAGCATAATTTTGAAGGAGCAGAGGAGTTGGGAAAGGGCTTTGGAGATTTTCGAGTGGTTTAAGAAGAAGAGGTGTCATGAGTTGCATGTGATTCACTATAATACAGTGCTTAGGATTCTTGGGAAGGCGAAGAAGTGGAGTCATCTAAGGAGTCTTTGGGATGAGATGAATGTGGAAAGAATAGCACCCATTAACTCAACTTATGGAACTTTGATTGATGTTTACAGTAAGGGTGGGTTCGAAAAGGAAGCGCTCATTTGGCTGCAGAGGATGACCAAGCAAGGAATGAAACCTGATGAGGTTACTATGGCCATTGTGCTGCAGTTGTATAAGAAAGCAGGGGAGTACCGAAAAGCTGAGGAGTTTTTTGAGAAATGGTCGGAGAGCTCCTAG

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:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009507 GO:0009536 GO:0009987 GO:0016070 GO:0016787 GO:0016788 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

PPR PPR_2 PPR_3

Protein Analysis

290

Amino Acids

32.95

Weight (kDa)

8.86

Isoelectric Point (pI)

36.49

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_long	PF17177	171 - 283	8.4e-06	Pentacotripeptide-repeat region of PRORP

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: OG0006344)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G23020
fragaria_vesca	FvH4_4g02020
malus_domestica	MD13G1203500.v1.1 MD16G1205100.v1.1
prunus_persica	Prupe.1G026500_v2.0.a1
pyrus_communis	pycom13g17680
rosa_chinensis	RchiOBHm_Chr4g0388991 RchiOBHm_Chr4g0389031 RchiOBHm_Chr4g0389081 RchiOBHm_Chr4g0389161 RchiOBHm_Chr4g0389171
rosa_laevigata	RLG00000010001
rosa_multiflora	Rmu_sc0001395.1_g000006
rosa_roxburghii	Rroxscaffold_5G00335330
rosa_rugosa	Rorug03G0321900
rosa_samantha	Rh4AG026400 Rh4BG019600 Rh4BG019800 Rh4BG019900 Rh4BG020200 Rh4BG020300 Rh4CG029400 Rh4DG020000 Rh4DG020400 Rh4DG020500 Rh4DG020900
rosa_wichuraiana	Rw4G001950

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	163
AciI	CCGC	1 cut(s)	384
AcoI	YGGCCR	1 cut(s)	789
AfaI	GTAC	2 cut(s)	66, 827
AfeI	AGCGCT	1 cut(s)	732
AfiI	CCNNNNNNNGG	5 cut(s)	34, 35, 76, 105, 244
AgsI	TTSAA	4 cut(s)	139, 214, 308, 493
AluBI	AGCT	4 cut(s)	13, 19, 836, 867
AluI	AGCT	4 cut(s)	13, 19, 836, 867
Alw21I	GWGCWC	1 cut(s)	869
Alw26I	GTCTC	1 cut(s)	452
Aor51HI	AGCGCT	1 cut(s)	732
AoxI	GGCC	2 cut(s)	446, 789
ApeKI	GCWGC	2 cut(s)	742, 799
ArsI	GACNNNNNNTTYG	2 cut(s)	343, 375
AspLEI	GCGC	1 cut(s)	733
AspS9I	GGNCC	2 cut(s)	48, 446
AsuHPI	GGTGA	4 cut(s)	45, 164, 281, 349
AsuII	TTCGAA	1 cut(s)	720
AvaII	GGWCC	1 cut(s)	48
BalI	TGGCCA	1 cut(s)	791
BanII	GRGCYC	1 cut(s)	869
BauI	CACGAG	1 cut(s)	43
Bbv12I	GWGCWC	1 cut(s)	869
BbvCI	CCTCAGC	1 cut(s)	837
BbvI	GCAGC	2 cut(s)	729, 786
BccI	CCATC	1 cut(s)	266
BceAI	ACGGC	3 cut(s)	397, 423, 433
BcoDI	GTCTC	1 cut(s)	452
BfaI	CTAG	1 cut(s)	871
BfmI	CTRYAG	2 cut(s)	743, 800
BfoI	RGCGCY	1 cut(s)	734
BisI	GCNGC	2 cut(s)	743, 800
BlsI	GCNGC	2 cut(s)	744, 801
BmcAI	AGTACT	1 cut(s)	66
Bme18I	GGWCC	1 cut(s)	48
BmgT120I	GGNCC	2 cut(s)	48, 446
BmiI	GGNNCC	2 cut(s)	40, 447
BpmI	CTGGAG	1 cut(s)	98
Bpu10I	CCTNAGC	2 cut(s)	590, 837
Bpu14I	TTCGAA	1 cut(s)	720
BsaJI	CCNNGG	1 cut(s)	449
Bsc4I	CCNNNNNNNGG	5 cut(s)	34, 35, 76, 105, 244
Bse1I	ACTGG	1 cut(s)	81
Bse3DI	GCAATG	1 cut(s)	405
BseDI	CCNNGG	1 cut(s)	449
BseGI	GGATG	3 cut(s)	439, 646, 756
BseLI	CCNNNNNNNGG	5 cut(s)	34, 35, 76, 105, 244
BseMI	GCAATG	1 cut(s)	405
BseMII	CTCAG	2 cut(s)	365, 828
BseNI	ACTGG	1 cut(s)	81
BseRI	GAGGAG	3 cut(s)	144, 517, 854
BseXI	GCAGC	2 cut(s)	729, 786
BsgI	GTGCAG	1 cut(s)	368
BshFI	GGCC	2 cut(s)	448, 791
BsiHKAI	GWGCWC	1 cut(s)	869
BsiSI	CCGG	1 cut(s)	395
BslI	CCNNNNNNNGG	5 cut(s)	34, 35, 76, 105, 244
BsmAI	GTCTC	1 cut(s)	452
BsmBI	CGTCTC	1 cut(s)	452
BsmI	GAATGC	1 cut(s)	390
BsnI	GGCC	2 cut(s)	448, 791
Bsp119I	TTCGAA	1 cut(s)	720
Bsp1286I	GDGCHC	1 cut(s)	869
BspACI	CCGC	1 cut(s)	384
BspANI	GGCC	2 cut(s)	448, 791
BspCNI	CTCAG	2 cut(s)	366, 829
BspHI	TCATGA	2 cut(s)	199, 556
BspLI	GGNNCC	2 cut(s)	40, 447
BspMAI	CTGCAG	2 cut(s)	747, 804
BspT104I	TTCGAA	1 cut(s)	720
BsrDI	GCAATG	1 cut(s)	405
BsrI	ACTGG	1 cut(s)	81
BssECI	CCNNGG	1 cut(s)	449
BssSI	CACGAG	1 cut(s)	43
Bst2BI	CACGAG	1 cut(s)	43
Bst4CI	ACNGT	3 cut(s)	64, 586, 707
Bst6I	CTCTTC	2 cut(s)	243, 542
BstAPI	GCANNNNNTGC	1 cut(s)	118
BstBI	TTCGAA	1 cut(s)	720
BstC8I	GCNNGC	1 cut(s)	6
BstDEI	CTNAG	5 cut(s)	374, 464, 590, 626, 837
BstDSI	CCRYGG	1 cut(s)	449
BstF5I	GGATG	3 cut(s)	439, 646, 756
BstH2I	RGCGCY	1 cut(s)	734
BstHHI	GCGC	1 cut(s)	733
BstMAI	GTCTC	1 cut(s)	452
BstMWI	GCNNNNNNNGC	3 cut(s)	10, 118, 739
BstNSI	RCATGY	1 cut(s)	569
BstSFI	CTRYAG	2 cut(s)	743, 800
BstV1I	GCAGC	2 cut(s)	729, 786
BsuRI	GGCC	2 cut(s)	448, 791
BtgI	CCRYGG	1 cut(s)	449
BtsCI	GGATG	3 cut(s)	439, 646, 756
BtsI	GCAGTG	1 cut(s)	193
BtsIMutI	CAGTG	3 cut(s)	74, 193, 591
Cac8I	GCNNGC	1 cut(s)	6
CciI	TCATGA	2 cut(s)	199, 556
CfoI	GCGC	1 cut(s)	733
Cfr13I	GGNCC	2 cut(s)	48, 446
CseI	GACGC	1 cut(s)	469
Csp6I	GTAC	2 cut(s)	65, 826
CviAII	CATG	3 cut(s)	200, 557, 566
CviQI	GTAC	2 cut(s)	65, 826
DdeI	CTNAG	5 cut(s)	374, 464, 590, 626, 837
EaeI	YGGCCR	1 cut(s)	789
Eam1104I	CTCTTC	2 cut(s)	243, 542
EarI	CTCTTC	2 cut(s)	243, 542
Ecl136II	GAGCTC	1 cut(s)	867
Eco24I	GRGCYC	1 cut(s)	869
Eco47I	GGWCC	1 cut(s)	48
Eco47III	AGCGCT	1 cut(s)	732
Eco53kI	GAGCTC	1 cut(s)	867
EcoICRI	GAGCTC	1 cut(s)	867
EcoO109I	RGGNCCY	1 cut(s)	48
EcoT38I	GRGCYC	1 cut(s)	869
Esp3I	CGTCTC	1 cut(s)	452
FaeI	CATG	3 cut(s)	203, 560, 569
FatI	CATG	3 cut(s)	199, 556, 565
FauI	CCCGC	1 cut(s)	377
FblI	GTMKAC	1 cut(s)	163
Fnu4HI	GCNGC	2 cut(s)	743, 800
FokI	GGATG	3 cut(s)	446, 653, 763
FriOI	GRGCYC	1 cut(s)	869
Fsp4HI	GCNGC	2 cut(s)	743, 800
FspBI	CTAG	1 cut(s)	871
GlaI	GCGC	1 cut(s)	732
GluI	GCNGC	2 cut(s)	743, 800
GsuI	CTGGAG	1 cut(s)	98
HaeII	RGCGCY	1 cut(s)	734
HaeIII	GGCC	2 cut(s)	448, 791
HapII	CCGG	1 cut(s)	395
HgaI	GACGC	1 cut(s)	469
HhaI	GCGC	1 cut(s)	733
Hin1II	CATG	3 cut(s)	203, 560, 569
Hin6I	GCGC	1 cut(s)	731
HinP1I	GCGC	1 cut(s)	731
HincII	GTYRAC	1 cut(s)	405
HindII	GTYRAC	1 cut(s)	405
HinfI	GANTC	5 cut(s)	262, 571, 595, 619, 631
HpaII	CCGG	1 cut(s)	395
HphI	GGTGA	4 cut(s)	45, 164, 281, 349
Hpy166II	GTNNAC	3 cut(s)	164, 405, 703
Hpy188I	TCNGA	1 cut(s)	862
Hpy188III	TCNNGA	3 cut(s)	139, 200, 557
Hpy8I	GTNNAC	3 cut(s)	164, 405, 703
Hpy99I	CGWCG	1 cut(s)	367
HpyAV	CCTTC	3 cut(s)	136, 487, 598
HpyCH4III	ACNGT	3 cut(s)	64, 586, 707
HpyCH4V	TGCA	5 cut(s)	349, 390, 565, 745, 802
HpyF10VI	GCNNNNNNNGC	3 cut(s)	10, 118, 739
HpyF3I	CTNAG	5 cut(s)	374, 464, 590, 626, 837
Hsp92II	CATG	3 cut(s)	203, 560, 569
HspAI	GCGC	1 cut(s)	731
LmnI	GCTCC	4 cut(s)	18, 480, 496, 872
Lsp1109I	GCAGC	2 cut(s)	729, 786
MaeI	CTAG	1 cut(s)	871
MaeIII	GTNAC	3 cut(s)	377, 467, 781
MboII	GAAGA	7 cut(s)	226, 244, 260, 352, 556, 559, 622
MhlI	GDGCHC	1 cut(s)	869
MlsI	TGGCCA	1 cut(s)	791
MluCI	AATT	2 cut(s)	308, 486
MluNI	TGGCCA	1 cut(s)	791
MlyI	GAGTC	2 cut(s)	628, 640
MmeI	TCCRAC	2 cut(s)	393, 840
Mox20I	TGGCCA	1 cut(s)	791
MscI	TGGCCA	1 cut(s)	791
MseI	TTAA	2 cut(s)	540, 672
MslI	CAYNNNNRTG	1 cut(s)	177
Msp20I	TGGCCA	1 cut(s)	791
MspA1I	CMGCKG	1 cut(s)	19
MspI	CCGG	1 cut(s)	395
Mva1269I	GAATGC	1 cut(s)	390
MwoI	GCNNNNNNNGC	3 cut(s)	10, 118, 739
NlaIII	CATG	3 cut(s)	203, 560, 569
NlaIV	GGNNCC	2 cut(s)	40, 447
NspI	RCATGY	1 cut(s)	569
NspV	TTCGAA	1 cut(s)	720
PagI	TCATGA	2 cut(s)	199, 556
PctI	GAATGC	1 cut(s)	390
PfeI	GAWTC	3 cut(s)	262, 571, 595
PkrI	GCNGC	2 cut(s)	744, 801
PleI	GAGTC	2 cut(s)	627, 639
PpsI	GAGTC	2 cut(s)	627, 639
PpuMI	RGGWCCY	1 cut(s)	48
Psp124BI	GAGCTC	1 cut(s)	869
Psp5II	RGGWCCY	1 cut(s)	48
PspN4I	GGNNCC	2 cut(s)	40, 447
PspPI	GGNCC	2 cut(s)	48, 446
PspPPI	RGGWCCY	1 cut(s)	48
PstI	CTGCAG	2 cut(s)	747, 804
PvuII	CAGCTG	1 cut(s)	19
RsaI	GTAC	2 cut(s)	66, 827
RsaNI	GTAC	2 cut(s)	65, 826
RseI	CAYNNNNRTG	1 cut(s)	177
SacI	GAGCTC	1 cut(s)	869
SaqAI	TTAA	2 cut(s)	540, 672
SatI	GCNGC	2 cut(s)	743, 800
Sau96I	GGNCC	2 cut(s)	48, 446
ScaI	AGTACT	1 cut(s)	66
SchI	GAGTC	2 cut(s)	628, 640
SduI	GDGCHC	1 cut(s)	869
SetI	ASST	8 cut(s)	15, 21, 53, 554, 775, 783, 838, 869
SfcI	CTRYAG	2 cut(s)	743, 800
SfuI	TTCGAA	1 cut(s)	720
SinI	GGWCC	1 cut(s)	48
SmiMI	CAYNNNNRTG	1 cut(s)	177
Sse9I	AATT	2 cut(s)	308, 486
SsiI	CCGC	1 cut(s)	384
SspMI	CTAG	1 cut(s)	871
SstI	GAGCTC	1 cut(s)	869
TaaI	ACNGT	3 cut(s)	64, 586, 707
TaqI	TCGA	4 cut(s)	87, 362, 531, 720
TasI	AATT	2 cut(s)	308, 486
TatI	WGTACW	1 cut(s)	64
TfiI	GAWTC	3 cut(s)	262, 571, 595
Tru1I	TTAA	2 cut(s)	540, 672
Tru9I	TTAA	2 cut(s)	540, 672
TscAI	CASTG	3 cut(s)	81, 193, 591
TseI	GCWGC	2 cut(s)	742, 799
TspDTI	ATGAA	4 cut(s)	188, 216, 662, 782
TspGWI	ACGGA	1 cut(s)	141
TspRI	CASTG	3 cut(s)	81, 193, 591
VpaK11BI	GGWCC	1 cut(s)	48
XceI	RCATGY	1 cut(s)	569
XmiI	GTMKAC	1 cut(s)	163
XspI	CTAG	1 cut(s)	871
ZrmI	AGTACT	1 cut(s)	66

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