Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000004

Orthogroup ID

OG0003039

Physical Location & Seq

Genomic Coordinates Forward (+)

12375916 .. 12380452

Gene Structure 4537 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_4G00291970.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1176 bp

ATGGATCCTGAATCAAATCCTTTTTTTGACCCGAAGATGGGCATTAATATGACGAAGATTATGAGGCCAAAGAGGATGAACTTCCAGTTTGTAGAGGAAGGGAAGTGGTCAAGAGATGCTGAACATATGAAGTTGAAGAGTAAATTTGGGGAATTACAAGCAAAAGAGCATAGGGCGAAGCAGGCCCAGTTGGCAAAGGCCAAGGCAGCACCTGATACAAATCCAAATTTGATAGAGGTAGCAGAAAGAGTCATCACCAAAGAAAAACTGAAGGATCCAATTCCTGAAGTTGAGTGGTGGGATGTGTCCTTTTTACAATCTGGTACTTATGGCGAGCTTGTTGATGGTAGAATACCTGAAGATAGATTAAAGTTGGACAAAATCACCATCTATGTTGAACATCCCCAGCCCATTGAGCCCCCTGTGGAGCCAGCTCCTCCACCACCTCAACCATTAAAGTTGACCAAGAAAGAGCAGAAAAAACTACGCACACAGCGTCGTCTTGCTAGAGAGAAAGATAAGCAGGAGATGATTAGACAGGGTCTGATTGAACCCCCCAAGTCAAAAGTTAAAATGAGTAATTTGATGAAAGTTCTTGGCTCCGAAGCAACCCAAGATCCAACCAGACTGGAAAAGGAGATCCGGAGTGCAGCTGCTGAACGTGAACAAGCTCATATAGACAGGAATATTGCCCGCAAGCTCACTCCTGCTGAGCGCCGTGAGAAGAAAGAGAGGAAGCTTTTTGATGATCCAAATAATGTGGATACCATAGTCTCAGTTTATAAAATCAATGATCTATCTCATCCAAAGGCCCGCTTTAAGATTGATGTTAATGCCAGAGAGAATCGGCTGACTGGATGTGCTGTGATCTCAGATGGTATGAATGTTGTGGCTGTTGAAGGTGGAAGCAAATCTATCAAAAGGTATGCAAAGGTCATGCTTCGGCGCATAAACTGGGCTGAGGCTGTGAAAGAGGAGGAAGAAGATAAAGAAGAAAATGATGATAAGCCTCCTAACAAGTGTGTCTTGGTGTGGCAAGGAAGTGTTGCCAGGCCTAGTTTCAATAGATTTTTGGTTCATGAATGCATGACTGAAGCTGCTGGTCGAAAGTTCTTTGCTGATGCTGGCGTTGCTCATTACTGGGATCTTGCAGTCAACTTTACTGATGATGAATAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000375 GO:0000377 GO:0000398 GO:0003006 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0006139 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0007275 GO:0008150 GO:0008152 GO:0008380 GO:0009790 GO:0009791 GO:0009793 GO:0009987 GO:0010154 GO:0010467 GO:0016070 GO:0016071 GO:0019219 GO:0019222 GO:0022414 GO:0030532 GO:0031323 GO:0031974 GO:0031981 GO:0032501 GO:0032502 GO:0032991 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0044030 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0046483 GO:0046540 GO:0048316 GO:0048608 GO:0048731 GO:0048856 GO:0050789 GO:0050794 GO:0051052 GO:0051171 GO:0060255 GO:0061458 GO:0065007 GO:0070013 GO:0071704 GO:0080090 GO:0090304 GO:0097525 GO:0097526 GO:0120114 GO:1901360 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03040 map03040

Pfam Domains

Protein Families

DUF1115 PRP3

Protein Analysis

391

Amino Acids

44.97

Weight (kDa)

9.01

Isoelectric Point (pI)

43.22

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PRP3	PF08572	6 - 235	3.6e-65	pre-mRNA processing factor 3 domain
Prp3_C	PF06544	259 - 384	8.2e-43	Small nuclear ribonucleoprotein Prp3, C-terminal domain

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: OG0003039)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G28060 AT1G28060 AT1G28060 AT3G55930
fragaria_vesca	FvH4_2g04410 FvH4_7g20820 FvH4_7g20820 FvH4_7g20820 FvH4_7g20820 FvH4_7g20820
malus_domestica	MD01G1117500.v1.1 MD07G1185000.v1.1
prunus_persica	Prupe.2G224900_v2.0.a1 Prupe.2G224900_v2.0.a1 Prupe.6G042200_v2.0.a1
pyrus_communis	pycom01g14520 pycom07g17720
rosa_chinensis	RchiOBHm_Chr1g0365041
rosa_laevigata	RLG00000027448
rosa_multiflora	Rmu_sc0002451.1_g000035
rosa_roxburghii	Rroxscaffold_4G00291520 Rroxscaffold_4G00291970
rosa_rugosa	Rorug01G0319100 Rorug01G0319200
rosa_samantha	Rh1AG188900 Rh1AG328200 Rh1BG289700 Rh1CG174500 Rh1CG306300 Rh1DG163200 Rh1DG321100 Rh4DG027000
rosa_wichuraiana	Rw1G029120 Rw2G017970 Rw3G016000 Rw4G013150 Rw5G015830 Rw5G032310

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	783
AccIII	TCCGGA	1 cut(s)	642
AciI	CCGC	2 cut(s)	694, 814
AclWI	GGATC	7 cut(s)	12, 269, 282, 611, 634, 743, 1152
AcsI	RAATTY	2 cut(s)	143, 226
AcuI	CTGAAG	4 cut(s)	290, 306, 378, 1113
AfaI	GTAC	1 cut(s)	325
AfiI	CCNNNNNNNGG	2 cut(s)	37, 38
AgsI	TTSAA	5 cut(s)	136, 398, 551, 899, 1063
AjnI	CCWGG	1 cut(s)	1049
AluBI	AGCT	7 cut(s)	337, 434, 653, 671, 700, 739, 1097
AluI	AGCT	7 cut(s)	337, 434, 653, 671, 700, 739, 1097
Alw26I	GTCTC	1 cut(s)	778
AlwI	GGATC	7 cut(s)	12, 269, 282, 611, 634, 743, 1152
AlwNI	CAGNNNCTG	3 cut(s)	212, 544, 656
Aor13HI	TCCGGA	1 cut(s)	642
AoxI	GGCC	5 cut(s)	65, 183, 198, 810, 1052
ApeKI	GCWGC	4 cut(s)	206, 650, 653, 1097
ApoI	RAATTY	2 cut(s)	143, 226
AseI	ATTAAT	1 cut(s)	45
AspLEI	GCGC	2 cut(s)	717, 948
AspS9I	GGNCC	2 cut(s)	184, 811
AsuHPI	GGTGA	2 cut(s)	247, 376
BaeI	ACNNNNGTAYC	2 cut(s)	756, 789
BamHI	GGATCC	2 cut(s)	4, 274
BanII	GRGCYC	1 cut(s)	420
BbvCI	CCTCAGC	1 cut(s)	960
BbvI	GCAGC	4 cut(s)	218, 640, 662, 1084
BccI	CCATC	4 cut(s)	31, 338, 395, 869
BceAI	ACGGC	1 cut(s)	702
BciT130I	CCWGG	1 cut(s)	1051
BciVI	GTATCC	1 cut(s)	757
BcoDI	GTCTC	1 cut(s)	778
BfaI	CTAG	2 cut(s)	507, 1056
BfoI	RGCGCY	1 cut(s)	718
BfuI	GTATCC	1 cut(s)	757
BglI	GCCNNNNNGGC	1 cut(s)	191
BisI	GCNGC	4 cut(s)	207, 651, 654, 1098
BlpI	GCTNAGC	1 cut(s)	711
BlsI	GCNGC	4 cut(s)	208, 652, 655, 1099
Bme1390I	CCNGG	1 cut(s)	1051
BmgT120I	GGNCC	2 cut(s)	184, 811
BmiI	GGNNCC	4 cut(s)	6, 276, 429, 601
BmrFI	CCNGG	1 cut(s)	1051
BmrI	ACTGGG	3 cut(s)	181, 964, 1150
BmsI	GCATC	2 cut(s)	106, 1111
BmuI	ACTGGG	3 cut(s)	181, 964, 1150
Bpu10I	CCTNAGC	1 cut(s)	960
Bpu1102I	GCTNAGC	1 cut(s)	711
BsaBI	GATNNNNATC	1 cut(s)	219
BsaJI	CCNNGG	1 cut(s)	201
BsaWI	WCCGGW	1 cut(s)	642
Bsc4I	CCNNNNNNNGG	2 cut(s)	37, 38
Bse1I	ACTGG	6 cut(s)	85, 187, 633, 859, 959, 1145
Bse8I	GATNNNNATC	1 cut(s)	219
BseAI	TCCGGA	1 cut(s)	642
BseBI	CCWGG	1 cut(s)	1051
BseDI	CCNNGG	1 cut(s)	201
BseGI	GGATG	5 cut(s)	81, 307, 400, 802, 863
BseJI	GATNNNNATC	1 cut(s)	219
BseLI	CCNNNNNNNGG	2 cut(s)	37, 38
BseMII	CTCAG	4 cut(s)	702, 789, 885, 951
BseNI	ACTGG	6 cut(s)	85, 187, 633, 859, 959, 1145
BseRI	GAGGAG	2 cut(s)	426, 989
BseXI	GCAGC	4 cut(s)	218, 640, 662, 1084
BseYI	CCCAGC	1 cut(s)	405
BsgI	GTGCAG	1 cut(s)	669
BshFI	GGCC	5 cut(s)	67, 185, 200, 812, 1054
BsiSI	CCGG	1 cut(s)	643
BslI	CCNNNNNNNGG	2 cut(s)	37, 38
BsmAI	GTCTC	1 cut(s)	778
BsmI	GAATGC	1 cut(s)	1088
BsnI	GGCC	5 cut(s)	67, 185, 200, 812, 1054
Bsp1286I	GDGCHC	1 cut(s)	420
Bsp13I	TCCGGA	1 cut(s)	642
Bsp143I	GATC	8 cut(s)	4, 274, 616, 639, 748, 793, 867, 1144
Bsp1720I	GCTNAGC	1 cut(s)	711
BspACI	CCGC	2 cut(s)	694, 814
BspANI	GGCC	5 cut(s)	67, 185, 200, 812, 1054
BspCNI	CTCAG	4 cut(s)	703, 788, 884, 952
BspEI	TCCGGA	1 cut(s)	642
BspHI	TCATGA	1 cut(s)	1078
BspLI	GGNNCC	4 cut(s)	6, 276, 429, 601
BspPI	GGATC	7 cut(s)	12, 269, 282, 611, 634, 743, 1152
BsrI	ACTGG	6 cut(s)	85, 187, 633, 859, 959, 1145
BssECI	CCNNGG	1 cut(s)	201
BssMI	GATC	8 cut(s)	4, 274, 616, 639, 748, 793, 867, 1144
BssT1I	CCWWGG	1 cut(s)	201
Bst2UI	CCWGG	1 cut(s)	1051
Bst6I	CTCTTC	1 cut(s)	131
BstC8I	GCNNGC	7 cut(s)	183, 335, 432, 694, 698, 814, 1126
BstDEI	CTNAG	4 cut(s)	711, 775, 871, 960
BstF5I	GGATG	5 cut(s)	81, 307, 400, 802, 863
BstH2I	RGCGCY	1 cut(s)	718
BstHHI	GCGC	2 cut(s)	717, 948
BstKTI	GATC	8 cut(s)	7, 277, 619, 642, 751, 796, 870, 1147
BstMAI	GTCTC	1 cut(s)	778
BstMBI	GATC	8 cut(s)	4, 274, 616, 639, 748, 793, 867, 1144
BstMWI	GCNNNNNNNGC	5 cut(s)	182, 191, 206, 415, 1130
BstNI	CCWGG	1 cut(s)	1051
BstSCI	CCNGG	1 cut(s)	1049
BstV1I	GCAGC	4 cut(s)	218, 640, 662, 1084
BstX2I	RGATCY	5 cut(s)	4, 274, 616, 639, 1144
BstYI	RGATCY	5 cut(s)	4, 274, 616, 639, 1144
BsuI	GTATCC	1 cut(s)	757
BsuRI	GGCC	5 cut(s)	67, 185, 200, 812, 1054
BtsCI	GGATG	5 cut(s)	81, 307, 400, 802, 863
Cac8I	GCNNGC	7 cut(s)	183, 335, 432, 694, 698, 814, 1126
CaiI	CAGNNNCTG	3 cut(s)	212, 544, 656
CciI	TCATGA	1 cut(s)	1078
CfoI	GCGC	2 cut(s)	717, 948
Cfr13I	GGNCC	2 cut(s)	184, 811
CseI	GACGC	1 cut(s)	485
Csp6I	GTAC	1 cut(s)	324
CspCI	CAANNNNNGTGG	2 cut(s)	741, 776
CviAII	CATG	3 cut(s)	937, 1079, 1087
CviQI	GTAC	1 cut(s)	324
DdeI	CTNAG	4 cut(s)	711, 775, 871, 960
DpnI	GATC	8 cut(s)	6, 276, 618, 641, 750, 795, 869, 1146
DpnII	GATC	8 cut(s)	4, 274, 616, 639, 748, 793, 867, 1144
Eam1104I	CTCTTC	1 cut(s)	131
EarI	CTCTTC	1 cut(s)	131
Eco130I	CCWWGG	1 cut(s)	201
Eco147I	AGGCCT	1 cut(s)	1054
Eco24I	GRGCYC	1 cut(s)	420
Eco57I	CTGAAG	4 cut(s)	290, 306, 378, 1113
EcoRII	CCWGG	1 cut(s)	1049
EcoT14I	CCWWGG	1 cut(s)	201
EcoT22I	ATGCAT	1 cut(s)	1088
EcoT38I	GRGCYC	1 cut(s)	420
ErhI	CCWWGG	1 cut(s)	201
FaeI	CATG	3 cut(s)	940, 1082, 1090
FalI	AAGNNNNNCTT	4 cut(s)	800, 832, 1010, 1042
FatI	CATG	3 cut(s)	936, 1078, 1086
FauI	CCCGC	2 cut(s)	701, 821
FauNDI	CATATG	1 cut(s)	126
Fnu4HI	GCNGC	4 cut(s)	207, 651, 654, 1098
FokI	GGATG	5 cut(s)	88, 314, 387, 789, 870
FriOI	GRGCYC	1 cut(s)	420
Fsp4HI	GCNGC	4 cut(s)	207, 651, 654, 1098
FspBI	CTAG	2 cut(s)	507, 1056
GlaI	GCGC	2 cut(s)	716, 947
GluI	GCNGC	4 cut(s)	207, 651, 654, 1098
GsaI	CCCAGC	1 cut(s)	409
HaeII	RGCGCY	1 cut(s)	718
HaeIII	GGCC	5 cut(s)	67, 185, 200, 812, 1054
HapII	CCGG	1 cut(s)	643
HgaI	GACGC	1 cut(s)	485
HhaI	GCGC	2 cut(s)	717, 948
Hin1II	CATG	3 cut(s)	940, 1082, 1090
Hin6I	GCGC	2 cut(s)	715, 946
HinP1I	GCGC	2 cut(s)	715, 946
HincII	GTYRAC	2 cut(s)	462, 1156
HindII	GTYRAC	2 cut(s)	462, 1156
HindIII	AAGCTT	1 cut(s)	737
HinfI	GANTC	3 cut(s)	11, 249, 844
HpaII	CCGG	1 cut(s)	643
HphI	GGTGA	2 cut(s)	247, 376
Hpy166II	GTNNAC	3 cut(s)	462, 665, 1156
Hpy188I	TCNGA	3 cut(s)	546, 604, 874
Hpy188III	TCNNGA	5 cut(s)	8, 111, 284, 643, 1079
Hpy8I	GTNNAC	3 cut(s)	462, 665, 1156
Hpy99I	CGWCG	1 cut(s)	501
HpyAV	CCTTC	3 cut(s)	92, 265, 893
HpyCH4IV	ACGT	1 cut(s)	661
HpyCH4V	TGCA	4 cut(s)	650, 929, 1086, 1151
HpyF10VI	GCNNNNNNNGC	5 cut(s)	182, 191, 206, 415, 1130
HpyF3I	CTNAG	4 cut(s)	711, 775, 871, 960
HpySE526I	ACGT	1 cut(s)	661
Hsp92II	CATG	3 cut(s)	940, 1082, 1090
HspAI	GCGC	2 cut(s)	715, 946
Kpn2I	TCCGGA	1 cut(s)	642
Kzo9I	GATC	8 cut(s)	4, 274, 616, 639, 748, 793, 867, 1144
LmnI	GCTCC	3 cut(s)	427, 439, 605
Lsp1109I	GCAGC	4 cut(s)	218, 640, 662, 1084
LweI	GCATC	2 cut(s)	106, 1111
MaeI	CTAG	2 cut(s)	507, 1056
MaeII	ACGT	1 cut(s)	661
MalI	GATC	8 cut(s)	6, 276, 618, 641, 750, 795, 869, 1146
MboI	GATC	8 cut(s)	4, 274, 616, 639, 748, 793, 867, 1144
MboII	GAAGA	8 cut(s)	46, 67, 148, 371, 736, 992, 995, 1004
MflI	RGATCY	5 cut(s)	4, 274, 616, 639, 1144
MhlI	GDGCHC	1 cut(s)	420
MluCI	AATT	5 cut(s)	143, 152, 226, 279, 580
MlyI	GAGTC	1 cut(s)	258
MmeI	TCCRAC	2 cut(s)	354, 644
Mph1103I	ATGCAT	1 cut(s)	1088
MroI	TCCGGA	1 cut(s)	642
MseI	TTAA	6 cut(s)	45, 368, 455, 570, 819, 831
MslI	CAYNNNNRTG	1 cut(s)	47
MspA1I	CMGCKG	1 cut(s)	653
MspI	CCGG	1 cut(s)	643
MspR9I	CCNGG	1 cut(s)	1051
Mva1269I	GAATGC	1 cut(s)	1088
MvaI	CCWGG	1 cut(s)	1051
MwoI	GCNNNNNNNGC	5 cut(s)	182, 191, 206, 415, 1130
NdeI	CATATG	1 cut(s)	126
NdeII	GATC	8 cut(s)	4, 274, 616, 639, 748, 793, 867, 1144
NlaIII	CATG	3 cut(s)	940, 1082, 1090
NlaIV	GGNNCC	4 cut(s)	6, 276, 429, 601
NsiI	ATGCAT	1 cut(s)	1088
PagI	TCATGA	1 cut(s)	1078
PceI	AGGCCT	1 cut(s)	1054
PcsI	WCGNNNNNNNCGW	1 cut(s)	493
PctI	GAATGC	1 cut(s)	1088
PfeI	GAWTC	2 cut(s)	11, 844
PflFI	GACNNNGTC	1 cut(s)	540
PkrI	GCNGC	4 cut(s)	208, 652, 655, 1099
PleI	GAGTC	1 cut(s)	257
PpsI	GAGTC	1 cut(s)	257
PshBI	ATTAAT	1 cut(s)	45
PsiI	TTATAA	1 cut(s)	783
Psp6I	CCWGG	1 cut(s)	1049
PspFI	CCCAGC	1 cut(s)	405
PspGI	CCWGG	1 cut(s)	1049
PspN4I	GGNNCC	4 cut(s)	6, 276, 429, 601
PspPI	GGNCC	2 cut(s)	184, 811
PstNI	CAGNNNCTG	3 cut(s)	212, 544, 656
PsuI	RGATCY	5 cut(s)	4, 274, 616, 639, 1144
PsyI	GACNNNGTC	1 cut(s)	540
PvuII	CAGCTG	1 cut(s)	653
RsaI	GTAC	1 cut(s)	325
RsaNI	GTAC	1 cut(s)	324
RseI	CAYNNNNRTG	1 cut(s)	47
SaqAI	TTAA	6 cut(s)	45, 368, 455, 570, 819, 831
SatI	GCNGC	4 cut(s)	207, 651, 654, 1098
Sau3AI	GATC	8 cut(s)	4, 274, 616, 639, 748, 793, 867, 1144
Sau96I	GGNCC	2 cut(s)	184, 811
SchI	GAGTC	1 cut(s)	258
ScrFI	CCNGG	1 cut(s)	1051
SduI	GDGCHC	1 cut(s)	420
SfaNI	GCATC	2 cut(s)	106, 1111
SmiMI	CAYNNNNRTG	1 cut(s)	47
Sse9I	AATT	5 cut(s)	143, 152, 226, 279, 580
SseBI	AGGCCT	1 cut(s)	1054
SsiI	CCGC	2 cut(s)	694, 814
SspI	AATATT	1 cut(s)	688
SspMI	CTAG	2 cut(s)	507, 1056
StuI	AGGCCT	1 cut(s)	1054
StyD4I	CCNGG	1 cut(s)	1049
StyI	CCWWGG	1 cut(s)	201
TaiI	ACGT	1 cut(s)	664
TaqI	TCGA	1 cut(s)	1105
TasI	AATT	5 cut(s)	143, 152, 226, 279, 580
TfiI	GAWTC	2 cut(s)	11, 844
Tru1I	TTAA	6 cut(s)	45, 368, 455, 570, 819, 831
Tru9I	TTAA	6 cut(s)	45, 368, 455, 570, 819, 831
TseI	GCWGC	4 cut(s)	206, 650, 653, 1097
TspDTI	ATGAA	6 cut(s)	92, 143, 602, 896, 1067, 1095
Tth111I	GACNNNGTC	1 cut(s)	540
VspI	ATTAAT	1 cut(s)	45
XapI	RAATTY	2 cut(s)	143, 226
XspI	CTAG	2 cut(s)	507, 1056
Zsp2I	ATGCAT	1 cut(s)	1088

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