Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0006770

Physical Location & Seq

Genomic Coordinates Forward (+)

6055522 .. 6059224

Gene Structure 3703 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG077900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1170 bp

ATGGCGAACCGCACGGACCCCTCGGCGAAGAACATAAGGGGCACGAACCCCCAGAACCTGATCGAGAAGATCGTACGGACGAAGATATACAACAACACCTATTGGAAGGAGCAGTGCTTCGGATTGACGGCGGAGACGCTGGTGGACAAGGCCATGGAGCTCGACCACATCGGCGGGACCTTTGGAGGTAACCGGAAGCCCACGCCGTTCATGTGCCTCGTCATGAAGATGCTTCAGATCCAACCGGAGAAGGAAATCGTCATCGAGTTCATTAAGAACGACGACTACAAATATGTTCGGGTACTTGGTGCATTTTACTTGCGTATCACAGGCAGCGATACTGATGTCTACCAGTACCTAGAGCCTCTGTACAATGACTATCGGAAGTTGAGAAGTAAATTGGCTGATGGACGTTTCTCATTGACTCATGTGGATGAGCTTATTGATGAACTTCTGACAAAGGACTACTCATGCGACATTGCCATGCCACGAATCAAGAAAAGATGGACTCTTGAATCAATTGGTTTGTTGGAACCTAGAAAAAGTGCTTTGGAGGAGGACTTTGAGGAGGAGGAAGAGAAAGAAGAGAATGATCAGCTTAATGGATTGGATGATGAAGTCCATGATAAGGAGTATTACCGTGGCCGAAGTCCTGAAAGGGAAAGAGACAGGGATAGAAGACGTGACAGGGACCGATACAGGGATCGTGATTATGACAGAGAATATGATAGGGATAGAGACTACGACAGAGAACGTGGACGTGGGAGAGAAAGAGATAGGAACAGAGACAGGGATAGGGACCGGGACCGGGACCGATATAGACTGAGAGATGAAAAGGATTATGGCCGTGATAGGGATCGGGATAGAGAGTGGGATGGTAGGGAGCGTGAGAGGCGAGATAGGGATCGTGGCAGGAGGAGGAGCCATTCAAGGAGCCGAAGTAGGAGTAGGGAGCACAAGGATCGTGAGGGTGGGGATCACCGCAAGAGACATGCCCGCAGCATCAGTCCTAGGAGGCGAGATGGGCCTGACGATGGCACTCGTGAGGAGCCGAGGAAGAAGAAAGAGAAGAAGGAGAAGAAGGCTGATGGCACAGACCATCCTGATCCTGAGATTGCTGAAGCCAACAGGCTCCGAGCATCTCTTGGTTTGAAGCCACTTAATGTCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005681 GO:0032991 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0071011 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03040 map03040

Pfam Domains

Protein Families

PRP38 PRP38_assoc

Protein Analysis

389

Amino Acids

47.09

Weight (kDa)

9.02

Isoelectric Point (pI)

48.12

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PRP38	PF03371	10 - 172	1.5e-67	PRP38 family
PRP38_assoc	PF12871	179 - 271	1.6e-08	Pre-mRNA-splicing factor 38-associated hydrophilic C-term

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0006770)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G40650
fragaria_vesca	FvH4_6g07010
malus_domestica	MD04G1196900.v1.1 MD12G1209800.v1.1
prunus_persica	Prupe.1G236900_v2.0.a1
pyrus_communis	pycom04g17410 pycom12g19720
rosa_chinensis	RchiOBHm_Chr3g0456541
rosa_laevigata	RLG00000025296
rosa_multiflora	Rmu_sc0000161.1_g000061 Rmu_sc0017908.1_g000013 Rmu_sc0023316.1_g000001
rosa_roxburghii	Rroxscaffold_3G00237330 Rroxscaffold_6G00422650
rosa_rugosa	Rorug03G0013800
rosa_samantha	Rh1BG185200 Rh1DG215000 Rh3AG074400 Rh3BG076100 Rh3CG075800 Rh3DG077900 Rh5AG404200 Rh5DG431400 Rh7AG053000 Rh7BG052600
rosa_wichuraiana	Rw3G006370

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	348
AciI	CCGC	5 cut(s)	10, 131, 174, 982, 997
AclWI	GGATC	7 cut(s)	232, 711, 864, 912, 969, 984, 1100
AcoI	YGGCCR	2 cut(s)	643, 844
AcuI	CTGAAG	2 cut(s)	218, 1140
AfaI	GTAC	4 cut(s)	75, 303, 356, 371
AfiI	CCNNNNNNNGG	5 cut(s)	628, 700, 808, 853, 1034
AgsI	TTSAA	3 cut(s)	515, 930, 1153
AjiI	CACGTC	2 cut(s)	683, 761
AluBI	AGCT	3 cut(s)	160, 439, 598
AluI	AGCT	3 cut(s)	160, 439, 598
Alw21I	GWGCWC	2 cut(s)	162, 957
Alw26I	GTCTC	5 cut(s)	128, 660, 732, 780, 982
AlwI	GGATC	7 cut(s)	232, 711, 864, 912, 969, 984, 1100
AlwNI	CAGNNNCTG	1 cut(s)	58
AoxI	GGCC	4 cut(s)	150, 643, 844, 1025
ApeKI	GCWGC	2 cut(s)	333, 999
AspA2I	CCTAGG	1 cut(s)	1010
AspS9I	GGNCC	7 cut(s)	16, 177, 691, 799, 805, 811, 1025
AsuC2I	CCSGG	2 cut(s)	803, 809
AsuHPI	GGTGA	1 cut(s)	971
AvaII	GGWCC	6 cut(s)	16, 177, 691, 799, 805, 811
AvrII	CCTAGG	1 cut(s)	1010
BaeGI	GKGCMC	1 cut(s)	44
BaeI	ACNNNNGTAYC	4 cut(s)	307, 330, 340, 363
BanII	GRGCYC	1 cut(s)	162
BauI	CACGAG	1 cut(s)	1041
BbsI	GAAGAC	1 cut(s)	685
Bbv12I	GWGCWC	2 cut(s)	162, 957
BbvI	GCAGC	2 cut(s)	345, 1011
BccI	CCATC	7 cut(s)	401, 498, 869, 1016, 1028, 1082, 1107
BceAI	ACGGC	3 cut(s)	144, 190, 831
BcgI	CGANNNNNNTGC	2 cut(s)	944, 978
BclI	TGATCA	1 cut(s)	592
BcnI	CCSGG	2 cut(s)	803, 809
BcoDI	GTCTC	5 cut(s)	128, 660, 732, 780, 982
BfaI	CTAG	3 cut(s)	359, 537, 1011
BisI	GCNGC	2 cut(s)	334, 1000
BlnI	CCTAGG	1 cut(s)	1010
BlsI	GCNGC	2 cut(s)	335, 1001
Bme1390I	CCNGG	2 cut(s)	803, 809
Bme18I	GGWCC	6 cut(s)	16, 177, 691, 799, 805, 811
BmgBI	CACGTC	2 cut(s)	683, 761
BmgT120I	GGNCC	7 cut(s)	16, 177, 691, 799, 805, 811, 1025
BmrFI	CCNGG	2 cut(s)	803, 809
BmsI	GCATC	3 cut(s)	219, 1011, 1148
BpiI	GAAGAC	1 cut(s)	685
BpuMI	CCSGG	2 cut(s)	803, 809
BsaBI	GATNNNNATC	2 cut(s)	855, 903
BsaJI	CCNNGG	5 cut(s)	21, 153, 640, 1010, 1052
BsaWI	WCCGGW	2 cut(s)	192, 244
BsaXI	ACNNNNNCTCC	2 cut(s)	925, 955
Bsc4I	CCNNNNNNNGG	5 cut(s)	628, 700, 808, 853, 1034
Bse1I	ACTGG	1 cut(s)	352
Bse3DI	GCAATG	1 cut(s)	477
Bse8I	GATNNNNATC	2 cut(s)	855, 903
BseDI	CCNNGG	5 cut(s)	21, 153, 640, 1010, 1052
BseGI	GGATG	4 cut(s)	439, 616, 880, 1099
BseJI	GATNNNNATC	2 cut(s)	855, 903
BseLI	CCNNNNNNNGG	5 cut(s)	628, 700, 808, 853, 1034
BseMI	GCAATG	1 cut(s)	477
BseMII	CTCAG	2 cut(s)	815, 1101
BseNI	ACTGG	1 cut(s)	352
BseRI	GAGGAG	6 cut(s)	569, 581, 584, 931, 934, 1061
BseSI	GKGCMC	1 cut(s)	44
BseXI	GCAGC	2 cut(s)	345, 1011
BshFI	GGCC	4 cut(s)	152, 645, 846, 1027
BsiHKAI	GWGCWC	2 cut(s)	162, 957
BsiSI	CCGG	4 cut(s)	193, 245, 802, 808
BsiWI	CGTACG	1 cut(s)	73
BslFI	GGGAC	5 cut(s)	190, 704, 812, 818, 824
BslI	CCNNNNNNNGG	5 cut(s)	628, 700, 808, 853, 1034
BsmAI	GTCTC	5 cut(s)	128, 660, 732, 780, 982
BsmBI	CGTCTC	1 cut(s)	128
BsmFI	GGGAC	5 cut(s)	190, 704, 812, 818, 824
BsnI	GGCC	4 cut(s)	152, 645, 846, 1027
Bsp1286I	GDGCHC	3 cut(s)	44, 162, 957
Bsp1407I	TGTACA	1 cut(s)	369
Bsp19I	CCATGG	1 cut(s)	153
BspACI	CCGC	5 cut(s)	10, 131, 174, 982, 997
BspANI	GGCC	4 cut(s)	152, 645, 846, 1027
BspCNI	CTCAG	2 cut(s)	816, 1102
BspHI	TCATGA	1 cut(s)	222
BspPI	GGATC	7 cut(s)	232, 711, 864, 912, 969, 984, 1100
BsrDI	GCAATG	1 cut(s)	477
BsrGI	TGTACA	1 cut(s)	369
BsrI	ACTGG	1 cut(s)	352
BssECI	CCNNGG	5 cut(s)	21, 153, 640, 1010, 1052
BssSI	CACGAG	1 cut(s)	1041
BssT1I	CCWWGG	2 cut(s)	153, 1010
Bst2BI	CACGAG	1 cut(s)	1041
Bst4CI	ACNGT	1 cut(s)	641
Bst6I	CTCTTC	2 cut(s)	570, 579
BstAUI	TGTACA	1 cut(s)	369
BstC8I	GCNNGC	1 cut(s)	997
BstDEI	CTNAG	2 cut(s)	824, 1110
BstDSI	CCRYGG	2 cut(s)	153, 640
BstEII	GGTNACC	1 cut(s)	188
BstF5I	GGATG	4 cut(s)	439, 616, 880, 1099
BstMAI	GTCTC	5 cut(s)	128, 660, 732, 780, 982
BstMWI	GCNNNNNNNGC	2 cut(s)	892, 1024
BstNSI	RCATGY	1 cut(s)	995
BstPI	GGTNACC	1 cut(s)	188
BstSCI	CCNGG	2 cut(s)	801, 807
BstSLI	GKGCMC	1 cut(s)	44
BstV1I	GCAGC	2 cut(s)	345, 1011
BstV2I	GAAGAC	1 cut(s)	685
BstX2I	RGATCY	1 cut(s)	237
BstYI	RGATCY	1 cut(s)	237
BsuRI	GGCC	4 cut(s)	152, 645, 846, 1027
BtgI	CCRYGG	2 cut(s)	153, 640
BtrI	CACGTC	2 cut(s)	683, 761
BtsCI	GGATG	4 cut(s)	439, 616, 880, 1099
BtsI	GCAGTG	1 cut(s)	119
BtsIMutI	CAGTG	1 cut(s)	119
Cac8I	GCNNGC	1 cut(s)	997
CaiI	CAGNNNCTG	1 cut(s)	58
CciI	TCATGA	1 cut(s)	222
Cfr13I	GGNCC	7 cut(s)	16, 177, 691, 799, 805, 811, 1025
CseI	GACGC	1 cut(s)	145
Csp6I	GTAC	4 cut(s)	74, 302, 355, 370
CviAII	CATG	8 cut(s)	154, 211, 223, 428, 471, 484, 623, 992
CviQI	GTAC	4 cut(s)	74, 302, 355, 370
DdeI	CTNAG	2 cut(s)	824, 1110
EaeI	YGGCCR	2 cut(s)	643, 844
Eam1104I	CTCTTC	2 cut(s)	570, 579
EarI	CTCTTC	2 cut(s)	570, 579
EciI	GGCGGA	1 cut(s)	146
Ecl136II	GAGCTC	1 cut(s)	160
Eco130I	CCWWGG	2 cut(s)	153, 1010
Eco24I	GRGCYC	1 cut(s)	162
Eco47I	GGWCC	6 cut(s)	16, 177, 691, 799, 805, 811
Eco53kI	GAGCTC	1 cut(s)	160
Eco57I	CTGAAG	2 cut(s)	218, 1140
Eco91I	GGTNACC	1 cut(s)	188
EcoICRI	GAGCTC	1 cut(s)	160
EcoO109I	RGGNCCY	1 cut(s)	177
EcoO65I	GGTNACC	1 cut(s)	188
EcoT14I	CCWWGG	2 cut(s)	153, 1010
EcoT38I	GRGCYC	1 cut(s)	162
ErhI	CCWWGG	2 cut(s)	153, 1010
Esp3I	CGTCTC	1 cut(s)	128
FaeI	CATG	8 cut(s)	157, 214, 226, 431, 474, 487, 626, 995
FaqI	GGGAC	5 cut(s)	190, 704, 812, 818, 824
FatI	CATG	8 cut(s)	153, 210, 222, 427, 470, 483, 622, 991
FauI	CCCGC	2 cut(s)	167, 1004
FbaI	TGATCA	1 cut(s)	592
FblI	GTMKAC	1 cut(s)	348
Fnu4HI	GCNGC	2 cut(s)	334, 1000
FokI	GGATG	4 cut(s)	446, 623, 887, 1086
FriOI	GRGCYC	1 cut(s)	162
Fsp4HI	GCNGC	2 cut(s)	334, 1000
FspBI	CTAG	3 cut(s)	359, 537, 1011
GluI	GCNGC	2 cut(s)	334, 1000
HaeIII	GGCC	4 cut(s)	152, 645, 846, 1027
HapII	CCGG	4 cut(s)	193, 245, 802, 808
HgaI	GACGC	1 cut(s)	145
Hin1II	CATG	8 cut(s)	157, 214, 226, 431, 474, 487, 626, 995
HinfI	GANTC	4 cut(s)	424, 492, 508, 515
HpaII	CCGG	4 cut(s)	193, 245, 802, 808
HphI	GGTGA	1 cut(s)	971
Hpy166II	GTNNAC	3 cut(s)	145, 349, 758
Hpy188I	TCNGA	6 cut(s)	122, 237, 384, 456, 1136, 1169
Hpy8I	GTNNAC	3 cut(s)	145, 349, 758
Hpy99I	CGWCG	1 cut(s)	284
HpyAV	CCTTC	4 cut(s)	100, 244, 1066, 1075
HpyCH4III	ACNGT	1 cut(s)	641
HpyCH4IV	ACGT	4 cut(s)	412, 682, 754, 760
HpyCH4V	TGCA	1 cut(s)	311
HpyF10VI	GCNNNNNNNGC	2 cut(s)	892, 1024
HpyF3I	CTNAG	2 cut(s)	824, 1110
HpySE526I	ACGT	4 cut(s)	412, 682, 754, 760
Hsp92II	CATG	8 cut(s)	157, 214, 226, 431, 474, 487, 626, 995
Ksp22I	TGATCA	1 cut(s)	592
LmnI	GCTCC	8 cut(s)	109, 157, 883, 921, 933, 952, 1048, 1137
Lsp1109I	GCAGC	2 cut(s)	345, 1011
LweI	GCATC	3 cut(s)	219, 1011, 1148
MaeI	CTAG	3 cut(s)	359, 537, 1011
MaeII	ACGT	4 cut(s)	412, 682, 754, 760
MaeIII	GTNAC	2 cut(s)	188, 683
MfeI	CAATTG	1 cut(s)	519
MflI	RGATCY	1 cut(s)	237
MhlI	GDGCHC	3 cut(s)	44, 162, 957
MluCI	AATT	2 cut(s)	398, 519
MlyI	GAGTC	2 cut(s)	418, 502
MmeI	TCCRAC	2 cut(s)	265, 510
MseI	TTAA	3 cut(s)	273, 600, 1161
MslI	CAYNNNNRTG	3 cut(s)	227, 432, 482
MspI	CCGG	4 cut(s)	193, 245, 802, 808
MspR9I	CCNGG	2 cut(s)	803, 809
MunI	CAATTG	1 cut(s)	519
MwoI	GCNNNNNNNGC	2 cut(s)	892, 1024
NciI	CCSGG	2 cut(s)	803, 809
NcoI	CCATGG	1 cut(s)	153
NlaIII	CATG	8 cut(s)	157, 214, 226, 431, 474, 487, 626, 995
NmeAIII	GCCGAG	1 cut(s)	1077
NmuCI	GTSAC	1 cut(s)	683
NspI	RCATGY	1 cut(s)	995
PagI	TCATGA	1 cut(s)	222
PcsI	WCGNNNNNNNCGW	1 cut(s)	69
PfeI	GAWTC	2 cut(s)	492, 515
Pfl23II	CGTACG	1 cut(s)	73
PkrI	GCNGC	2 cut(s)	335, 1001
PleI	GAGTC	2 cut(s)	418, 502
PpsI	GAGTC	2 cut(s)	418, 502
PpuMI	RGGWCCY	1 cut(s)	177
Psp124BI	GAGCTC	1 cut(s)	162
Psp5II	RGGWCCY	1 cut(s)	177
PspEI	GGTNACC	1 cut(s)	188
PspLI	CGTACG	1 cut(s)	73
PspPI	GGNCC	7 cut(s)	16, 177, 691, 799, 805, 811, 1025
PspPPI	RGGWCCY	1 cut(s)	177
PsrI	GAACNNNNNNTAC	2 cut(s)	269, 301
PstNI	CAGNNNCTG	1 cut(s)	58
PsuI	RGATCY	1 cut(s)	237
RsaI	GTAC	4 cut(s)	75, 303, 356, 371
RsaNI	GTAC	4 cut(s)	74, 302, 355, 370
RseI	CAYNNNNRTG	3 cut(s)	227, 432, 482
SacI	GAGCTC	1 cut(s)	162
SaqAI	TTAA	3 cut(s)	273, 600, 1161
SatI	GCNGC	2 cut(s)	334, 1000
Sau96I	GGNCC	7 cut(s)	16, 177, 691, 799, 805, 811, 1025
SchI	GAGTC	2 cut(s)	418, 502
ScrFI	CCNGG	2 cut(s)	803, 809
SduI	GDGCHC	3 cut(s)	44, 162, 957
SfaNI	GCATC	3 cut(s)	219, 1011, 1148
SinI	GGWCC	6 cut(s)	16, 177, 691, 799, 805, 811
SmiMI	CAYNNNNRTG	3 cut(s)	227, 432, 482
Sse9I	AATT	2 cut(s)	398, 519
SsiI	CCGC	5 cut(s)	10, 131, 174, 982, 997
SspMI	CTAG	3 cut(s)	359, 537, 1011
SstI	GAGCTC	1 cut(s)	162
StyD4I	CCNGG	2 cut(s)	801, 807
StyI	CCWWGG	2 cut(s)	153, 1010
TaaI	ACNGT	1 cut(s)	641
TaiI	ACGT	4 cut(s)	415, 685, 757, 763
TaqI	TCGA	3 cut(s)	63, 162, 264
TaqII	GACCGA	2 cut(s)	708, 828
TasI	AATT	2 cut(s)	398, 519
TatI	WGTACW	1 cut(s)	369
TfiI	GAWTC	2 cut(s)	492, 515
Tru1I	TTAA	3 cut(s)	273, 600, 1161
Tru9I	TTAA	3 cut(s)	273, 600, 1161
TscAI	CASTG	1 cut(s)	119
TseFI	GTSAC	1 cut(s)	683
TseI	GCWGC	2 cut(s)	333, 999
Tsp45I	GTSAC	1 cut(s)	683
TspDTI	ATGAA	6 cut(s)	199, 239, 259, 462, 630, 846
TspGWI	ACGGA	2 cut(s)	29, 91
TspRI	CASTG	1 cut(s)	119
VpaK11BI	GGWCC	6 cut(s)	16, 177, 691, 799, 805, 811
XceI	RCATGY	1 cut(s)	995
XmaJI	CCTAGG	1 cut(s)	1010
XmiI	GTMKAC	1 cut(s)	348
XspI	CTAG	3 cut(s)	359, 537, 1011

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