Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4A

Orthogroup ID

OG0002200

Physical Location & Seq

Genomic Coordinates Forward (+)

18267751 .. 18272152

Gene Structure 4402 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4AG087400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1251 bp

ATGGAGATACAGACGAGCGGGAAACCAATTGACTCGTTATTGGAGAAGGTGCTATGTATGAACATTCTGTCTTCCGATTACTTCAAGGAGCTTTACAGGTTGAAGACGTATCACGAAGTTGTGGATGAGATTTACAATCAAGTAGACCACGTCGAGCCGTGGATGACTGGGAATTGCCGAGGTCCTTCTACTGCGTTTTGCTTACTCTACAAGTTCTTCACCATGAAACTCACCGTCAAGCAAATGCACGGCCTCTTGAAGCACAAGGACTCTCCTTACATTCGAGCGGTTGGGTTCCTCTACTTGAGATATGCCGCAGACCCGAAGACGATTTGGAATTGGGTTGAGCCCTATATTACAGATGACGAGAAATTCTCTCCAGGTTCCAATGGACGAATGACCACTATGGGTGTATATGTGCGTGATTTGCTACTTGGCCAGTACTACTTTGATACACTTTTCCCTCGCATACCTGTTCCTGTGTTGCGGCAGATTACAGCTAATCTTGAGAAGATGAAACTCCCAACAAAACTCTCTGGTGTTACTGGGGAGGCTACCCGTCATGGATCTGATGACACTGCCCGTCGCCCACCTTCTGTGAAAGCGGCACTTTCAGTCTCCTTTGGTCAACGTGCCCCACACCGTGCTTCGACGAGGGACTCATCACCTGTTCGTCGAACTTTACCGCCACCGCCACCTTATGAAAAAGCTAGCACTGATGATTTACGGAGCCGTCGTAGCCAGAGCCGTGAGTATTCTGACAGAGACCATTCGGACAGGGATAGGGGAAGGGACCGGGATCGGAATCGGGAAAGAGACAGGGATAGTGATCGTGATCGTGAACGAGAAAGGTACAAGGAACGGGAGAGGGGTCGAGATAGAGACAGATCAAGGGATAGAGAACGAAGTTCTGATTATGATAGGAGGTCAAGATATGCAGAGAGAGAAAGCCGGAGGGACTATTATGAGAGTAGCCGTGATGGTGGTAGACATTCTCGTAGGAGTAGGAGTCGAAGCCGCAGTAGAAGCAGGAGTAGGAGTCGGAGCTTGCAAGCTGGCACTGCTCCTCATGTAAGCCCGCCAAGAGATGTAAACAAGGATAGAACATCTGTATCTAGCAATCTGGCAAAACTTAGGGATCTTTATGGTGATGTGAGTGTCCAAAAAGGGGATACTAGTATGGATAGGATTCCGAGGAGCGATAACGGTGCTGAAGAGGTGATTAGGCTTGGTGGTCACCGATGGAAATAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005681 GO:0006950 GO:0006970 GO:0008150 GO:0009628 GO:0009651 GO:0010035 GO:0010038 GO:0010226 GO:0032991 GO:0042221 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0050896 GO:0071011 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03040 map03040

Pfam Domains

Protein Families

PRP38 PRP38_assoc

Protein Analysis

416

Amino Acids

48.6

Weight (kDa)

9.97

Isoelectric Point (pI)

63.83

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PRP38	PF03371	7 - 161	6.8e-51	PRP38 family
PRP38_assoc	PF12871	186 - 274	7.1e-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

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0002200)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G37370 AT5G37370 AT5G37370 AT5G37370 AT5G37370 AT5G37370 AT5G37370 AT5G37370 AT5G37370 AT5G37370 AT5G37370 AT5G37370
fragaria_vesca	FvH4_4g06670
malus_domestica	MD01G1153700.v1.1 MD13G1237000.v1.1 MD16G1242400.v1.1
prunus_persica	Prupe.1G069400_v2.0.a1
pyrus_communis	pycom13g20990 pycom16g20310
rosa_chinensis	RchiOBHm_Chr4g0398571 RchiOBHm_Chr7g0213101
rosa_laevigata	RLG00000009343 RLG00000029418
rosa_multiflora	Rmu_sc0000990.1_g000015 Rmu_sc0005217.1_g000008 Rmu_sc0037096.1_g000001 Rmu_sc0042611.1_g000001
rosa_roxburghii	Rroxscaffold_5G00343540
rosa_rugosa	Rorug04G0009400 Rorug04G0009400 Rorug04G0009400
rosa_samantha	Rh2CG542000 Rh2CG542400 Rh2DG581100 Rh2DG581300 Rh3CG285800 Rh4AG087400 Rh4BG084000 Rh4CG095600 Rh4DG078900 Rh5DG096400 Rh6BG299500
rosa_wichuraiana	Rw2G046220

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccBSI	CCGCTC	2 cut(s)	18, 287
AccI	GTMKAC	2 cut(s)	144, 988
AciI	CCGC	9 cut(s)	18, 287, 315, 487, 605, 686, 692, 1018, 1079
AclWI	GGATC	3 cut(s)	574, 807, 1146
AcoI	YGGCCR	1 cut(s)	436
AcsI	RAATTY	1 cut(s)	371
AcuI	CTGAAG	1 cut(s)	1233
AdeI	CACNNNGTG	1 cut(s)	644
AfaI	GTAC	2 cut(s)	443, 854
AfiI	CCNNNNNNNGG	1 cut(s)	1168
AgsI	TTSAA	3 cut(s)	85, 103, 259
AhlI	ACTAGT	1 cut(s)	1175
AjiI	CACGTC	1 cut(s)	151
AjnI	CCWGG	1 cut(s)	379
AluBI	AGCT	5 cut(s)	91, 500, 710, 1047, 1055
AluI	AGCT	5 cut(s)	91, 500, 710, 1047, 1055
Alw26I	GTCTC	4 cut(s)	622, 759, 810, 876
AlwI	GGATC	3 cut(s)	574, 807, 1146
AoxI	GGCC	2 cut(s)	250, 436
ApoI	RAATTY	1 cut(s)	371
AspS9I	GGNCC	2 cut(s)	182, 793
AsuC2I	CCSGG	1 cut(s)	797
AsuHPI	GGTGA	6 cut(s)	211, 223, 657, 1160, 1229, 1231
AsuNHI	GCTAGC	1 cut(s)	710
AvaII	GGWCC	2 cut(s)	182, 793
BaeGI	GKGCMC	1 cut(s)	637
BaeI	ACNNNNGTAYC	2 cut(s)	1095, 1128
BalI	TGGCCA	1 cut(s)	438
BanII	GRGCYC	1 cut(s)	351
BbsI	GAAGAC	3 cut(s)	63, 110, 332
BccI	CCATC	2 cut(s)	974, 1236
BceAI	ACGGC	5 cut(s)	142, 265, 717, 732, 960
BcgI	CGANNNNNNTGC	2 cut(s)	1190, 1224
BciT130I	CCWGG	1 cut(s)	381
BciVI	GTATCC	1 cut(s)	1165
BcnI	CCSGG	1 cut(s)	797
BcoDI	GTCTC	4 cut(s)	622, 759, 810, 876
BcuI	ACTAGT	1 cut(s)	1175
BfaI	CTAG	3 cut(s)	711, 1116, 1176
BfuI	GTATCC	1 cut(s)	1165
BisI	GCNGC	4 cut(s)	315, 488, 606, 1018
BlsI	GCNGC	4 cut(s)	316, 489, 607, 1019
BmcAI	AGTACT	1 cut(s)	443
Bme1390I	CCNGG	2 cut(s)	381, 797
Bme18I	GGWCC	2 cut(s)	182, 793
BmgBI	CACGTC	1 cut(s)	151
BmgT120I	GGNCC	2 cut(s)	182, 793
BmiI	GGNNCC	4 cut(s)	296, 385, 731, 794
BmrFI	CCNGG	2 cut(s)	381, 797
BmrI	ACTGGG	2 cut(s)	177, 555
BmtI	GCTAGC	1 cut(s)	714
BmuI	ACTGGG	2 cut(s)	177, 555
BpiI	GAAGAC	3 cut(s)	63, 110, 332
BplI	GAGNNNNNCTC	2 cut(s)	359, 391
BpmI	CTGGAG	1 cut(s)	363
BpuEI	CTTGAG	2 cut(s)	325, 527
BpuMI	CCSGG	1 cut(s)	797
BsaBI	GATNNNNATC	3 cut(s)	804, 828, 834
BsaI	GGTCTC	1 cut(s)	759
BsaJI	CCNNGG	3 cut(s)	158, 178, 1193
BsaXI	ACNNNNNCTCC	6 cut(s)	721, 751, 994, 1024, 1024, 1054
Bsc4I	CCNNNNNNNGG	1 cut(s)	1168
Bse1I	ACTGG	3 cut(s)	172, 439, 550
Bse8I	GATNNNNATC	3 cut(s)	804, 828, 834
BseBI	CCWGG	1 cut(s)	381
BseDI	CCNNGG	3 cut(s)	158, 178, 1193
BseGI	GGATG	2 cut(s)	130, 168
BseJI	GATNNNNATC	3 cut(s)	804, 828, 834
BseLI	CCNNNNNNNGG	1 cut(s)	1168
BseNI	ACTGG	3 cut(s)	172, 439, 550
BseRI	GAGGAG	2 cut(s)	1056, 1210
BseSI	GKGCMC	1 cut(s)	637
BshFI	GGCC	2 cut(s)	252, 438
BsiSI	CCGG	2 cut(s)	796, 952
BslFI	GGGAC	3 cut(s)	671, 806, 971
BslI	CCNNNNNNNGG	1 cut(s)	1168
BsmAI	GTCTC	4 cut(s)	622, 759, 810, 876
BsmFI	GGGAC	3 cut(s)	671, 806, 971
BsnI	GGCC	2 cut(s)	252, 438
Bso31I	GGTCTC	1 cut(s)	759
Bsp1286I	GDGCHC	2 cut(s)	351, 637
Bsp143I	GATC	6 cut(s)	566, 799, 829, 835, 887, 1138
BspACI	CCGC	9 cut(s)	18, 287, 315, 487, 605, 686, 692, 1018, 1079
BspANI	GGCC	2 cut(s)	252, 438
BspLI	GGNNCC	4 cut(s)	296, 385, 731, 794
BspOI	GCTAGC	1 cut(s)	714
BspPI	GGATC	3 cut(s)	574, 807, 1146
BspTNI	GGTCTC	1 cut(s)	759
BsrBI	CCGCTC	2 cut(s)	18, 287
BsrI	ACTGG	3 cut(s)	172, 439, 550
BssECI	CCNNGG	3 cut(s)	158, 178, 1193
BssMI	GATC	6 cut(s)	566, 799, 829, 835, 887, 1138
Bst2UI	CCWGG	1 cut(s)	381
Bst4CI	ACNGT	3 cut(s)	235, 644, 1208
Bst6I	CTCTTC	1 cut(s)	1209
BstC8I	GCNNGC	5 cut(s)	712, 1049, 1053, 1057, 1079
BstDEI	CTNAG	1 cut(s)	1133
BstDSI	CCRYGG	1 cut(s)	158
BstEII	GGTNACC	1 cut(s)	1235
BstF5I	GGATG	2 cut(s)	130, 168
BstKTI	GATC	6 cut(s)	569, 802, 832, 838, 890, 1141
BstMAI	GTCTC	4 cut(s)	622, 759, 810, 876
BstMBI	GATC	6 cut(s)	566, 799, 829, 835, 887, 1138
BstMWI	GCNNNNNNNGC	4 cut(s)	427, 738, 1026, 1061
BstNI	CCWGG	1 cut(s)	381
BstPI	GGTNACC	1 cut(s)	1235
BstSCI	CCNGG	2 cut(s)	379, 795
BstSLI	GKGCMC	1 cut(s)	637
BstV2I	GAAGAC	3 cut(s)	63, 110, 332
BstX2I	RGATCY	2 cut(s)	566, 1138
BstYI	RGATCY	2 cut(s)	566, 1138
BsuI	GTATCC	1 cut(s)	1165
BsuRI	GGCC	2 cut(s)	252, 438
BtgI	CCRYGG	1 cut(s)	158
BtrI	CACGTC	1 cut(s)	151
BtsCI	GGATG	2 cut(s)	130, 168
BtsI	GCAGTG	2 cut(s)	576, 1059
BtsIMutI	CAGTG	3 cut(s)	576, 714, 1059
Cac8I	GCNNGC	5 cut(s)	712, 1049, 1053, 1057, 1079
Cfr13I	GGNCC	2 cut(s)	182, 793
Csp6I	GTAC	2 cut(s)	442, 853
CviAII	CATG	3 cut(s)	223, 563, 1070
CviQI	GTAC	2 cut(s)	442, 853
DdeI	CTNAG	1 cut(s)	1133
DpnI	GATC	6 cut(s)	568, 801, 831, 837, 889, 1140
DpnII	GATC	6 cut(s)	566, 799, 829, 835, 887, 1138
DraIII	CACNNNGTG	1 cut(s)	644
EaeI	YGGCCR	1 cut(s)	436
Eam1104I	CTCTTC	1 cut(s)	1209
EarI	CTCTTC	1 cut(s)	1209
Eco24I	GRGCYC	1 cut(s)	351
Eco31I	GGTCTC	1 cut(s)	759
Eco47I	GGWCC	2 cut(s)	182, 793
Eco57I	CTGAAG	1 cut(s)	1233
Eco91I	GGTNACC	1 cut(s)	1235
EcoO109I	RGGNCCY	1 cut(s)	182
EcoO65I	GGTNACC	1 cut(s)	1235
EcoRII	CCWGG	1 cut(s)	379
EcoT38I	GRGCYC	1 cut(s)	351
FaeI	CATG	3 cut(s)	226, 566, 1073
FalI	AAGNNNNNCTT	2 cut(s)	594, 626
FaqI	GGGAC	3 cut(s)	671, 806, 971
FatI	CATG	3 cut(s)	222, 562, 1069
FauI	CCCGC	2 cut(s)	11, 1086
FblI	GTMKAC	2 cut(s)	144, 988
Fnu4HI	GCNGC	4 cut(s)	315, 488, 606, 1018
FokI	GGATG	2 cut(s)	137, 175
FriOI	GRGCYC	1 cut(s)	351
Fsp4HI	GCNGC	4 cut(s)	315, 488, 606, 1018
FspBI	CTAG	3 cut(s)	711, 1116, 1176
GluI	GCNGC	4 cut(s)	315, 488, 606, 1018
GsuI	CTGGAG	1 cut(s)	363
HaeIII	GGCC	2 cut(s)	252, 438
HapII	CCGG	2 cut(s)	796, 952
Hin1II	CATG	3 cut(s)	226, 566, 1073
HincII	GTYRAC	1 cut(s)	629
HindII	GTYRAC	1 cut(s)	629
HinfI	GANTC	7 cut(s)	32, 269, 659, 805, 1009, 1039, 1189
HpaII	CCGG	2 cut(s)	796, 952
HphI	GGTGA	6 cut(s)	211, 223, 657, 1160, 1229, 1231
Hpy166II	GTNNAC	5 cut(s)	145, 629, 842, 989, 1093
Hpy188I	TCNGA	8 cut(s)	76, 571, 760, 775, 804, 913, 1044, 1194
Hpy188III	TCNNGA	8 cut(s)	113, 256, 506, 809, 833, 839, 875, 930
Hpy8I	GTNNAC	5 cut(s)	145, 629, 842, 989, 1093
Hpy99I	CGWCG	5 cut(s)	155, 588, 655, 678, 738
HpyAV	CCTTC	4 cut(s)	40, 195, 603, 783
HpyCH4III	ACNGT	3 cut(s)	235, 644, 1208
HpyCH4IV	ACGT	3 cut(s)	107, 150, 631
HpyCH4V	TGCA	3 cut(s)	247, 938, 1051
HpyF10VI	GCNNNNNNNGC	4 cut(s)	427, 738, 1026, 1061
HpyF3I	CTNAG	1 cut(s)	1133
HpySE526I	ACGT	3 cut(s)	107, 150, 631
Hsp92II	CATG	3 cut(s)	226, 566, 1073
Kzo9I	GATC	6 cut(s)	566, 799, 829, 835, 887, 1138
LmnI	GCTCC	5 cut(s)	88, 729, 1044, 1069, 1197
MaeI	CTAG	3 cut(s)	711, 1116, 1176
MaeII	ACGT	3 cut(s)	107, 150, 631
MaeIII	GTNAC	2 cut(s)	541, 1235
MalI	GATC	6 cut(s)	568, 801, 831, 837, 889, 1140
MbiI	CCGCTC	2 cut(s)	18, 287
MboI	GATC	6 cut(s)	566, 799, 829, 835, 887, 1138
MboII	GAAGA	6 cut(s)	63, 115, 208, 337, 523, 1226
MfeI	CAATTG	1 cut(s)	27
MflI	RGATCY	2 cut(s)	566, 1138
MhlI	GDGCHC	2 cut(s)	351, 637
MlsI	TGGCCA	1 cut(s)	438
MluCI	AATT	4 cut(s)	27, 172, 337, 371
MluNI	TGGCCA	1 cut(s)	438
MlyI	GAGTC	5 cut(s)	26, 263, 653, 1018, 1048
MmeI	TCCRAC	1 cut(s)	1022
Mox20I	TGGCCA	1 cut(s)	438
MscI	TGGCCA	1 cut(s)	438
Msp20I	TGGCCA	1 cut(s)	438
MspI	CCGG	2 cut(s)	796, 952
MspR9I	CCNGG	2 cut(s)	381, 797
MunI	CAATTG	1 cut(s)	27
MvaI	CCWGG	1 cut(s)	381
MwoI	GCNNNNNNNGC	4 cut(s)	427, 738, 1026, 1061
NciI	CCSGG	1 cut(s)	797
NdeII	GATC	6 cut(s)	566, 799, 829, 835, 887, 1138
NheI	GCTAGC	1 cut(s)	710
NlaIII	CATG	3 cut(s)	226, 566, 1073
NlaIV	GGNNCC	4 cut(s)	296, 385, 731, 794
NmeAIII	GCCGAG	1 cut(s)	203
NmuCI	GTSAC	1 cut(s)	1235
PcsI	WCGNNNNNNNCGW	1 cut(s)	733
PfeI	GAWTC	2 cut(s)	805, 1189
PflFI	GACNNNGTC	1 cut(s)	149
PkrI	GCNGC	4 cut(s)	316, 489, 607, 1019
PleI	GAGTC	5 cut(s)	26, 263, 653, 1017, 1047
PpsI	GAGTC	5 cut(s)	26, 263, 653, 1017, 1047
PpuMI	RGGWCCY	1 cut(s)	182
Psp5II	RGGWCCY	1 cut(s)	182
Psp6I	CCWGG	1 cut(s)	379
PspEI	GGTNACC	1 cut(s)	1235
PspGI	CCWGG	1 cut(s)	379
PspN4I	GGNNCC	4 cut(s)	296, 385, 731, 794
PspPI	GGNCC	2 cut(s)	182, 793
PspPPI	RGGWCCY	1 cut(s)	182
PsuI	RGATCY	2 cut(s)	566, 1138
PsyI	GACNNNGTC	1 cut(s)	149
RsaI	GTAC	2 cut(s)	443, 854
RsaNI	GTAC	2 cut(s)	442, 853
SatI	GCNGC	4 cut(s)	315, 488, 606, 1018
Sau3AI	GATC	6 cut(s)	566, 799, 829, 835, 887, 1138
Sau96I	GGNCC	2 cut(s)	182, 793
ScaI	AGTACT	1 cut(s)	443
SchI	GAGTC	5 cut(s)	26, 263, 653, 1018, 1048
ScrFI	CCNGG	2 cut(s)	381, 797
SduI	GDGCHC	2 cut(s)	351, 637
SinI	GGWCC	2 cut(s)	182, 793
SmlI	CTYRAG	2 cut(s)	304, 506
SmoI	CTYRAG	2 cut(s)	304, 506
SpeI	ACTAGT	1 cut(s)	1175
Sse9I	AATT	4 cut(s)	27, 172, 337, 371
SsiI	CCGC	9 cut(s)	18, 287, 315, 487, 605, 686, 692, 1018, 1079
SspMI	CTAG	3 cut(s)	711, 1116, 1176
StyD4I	CCNGG	2 cut(s)	379, 795
TaaI	ACNGT	3 cut(s)	235, 644, 1208
TaiI	ACGT	3 cut(s)	110, 153, 634
TaqI	TCGA	6 cut(s)	153, 283, 650, 676, 874, 1012
TasI	AATT	4 cut(s)	27, 172, 337, 371
TatI	WGTACW	1 cut(s)	441
TauI	GCSGC	4 cut(s)	317, 490, 608, 1020
TfiI	GAWTC	2 cut(s)	805, 1189
TscAI	CASTG	3 cut(s)	583, 721, 1066
TseFI	GTSAC	1 cut(s)	1235
Tsp45I	GTSAC	1 cut(s)	1235
TspDTI	ATGAA	4 cut(s)	74, 239, 530, 717
TspGWI	ACGGA	1 cut(s)	742
TspRI	CASTG	3 cut(s)	583, 721, 1066
Tth111I	GACNNNGTC	1 cut(s)	149
VpaK11BI	GGWCC	2 cut(s)	182, 793
XapI	RAATTY	1 cut(s)	371
XmiI	GTMKAC	2 cut(s)	144, 988
XspI	CTAG	3 cut(s)	711, 1116, 1176
ZrmI	AGTACT	1 cut(s)	443

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