Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1D

Orthogroup ID

OG0000932

Physical Location & Seq

Genomic Coordinates Forward (+)

45236792 .. 45240082

Gene Structure 3291 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1DG238200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 789 bp

ATGAAGCCTATTTTCTGTGGCAACTTGGATTTTGATGCAAGGCAATCGGATGTCGAGCGGCTTTTCAATAAGTATGGGAAGGTCGATAGGGTGGATGTTAAGTCTGGATTTGCCTTTGTCTATATGGATGATGAGCGAGATGCTGAGTATGCAATTCGAAAGCTTGACAGGACAGAATTTGGTAGGAAGGGACGCCGTCTTCGTATTGAGTGGACCAAGCATGAACGCGGGATTAGGAGATCTGATGATTCAAAAAAACCACCAGCGAACACAAAGCCCTCAAAAACCCTGTTTGTTATCAATTTTGATCCTATCCATACCAGGACAAGGGATCTGGAGAAGCACTTTGATCTATATGGGAAAATAACGAACATAAGGATTAGAAGAAATTTTGCATTTATTCAATATGAATCACAGGAGGATGCTACCAAAGCATTGGATGCAACAAATTCAAGCAAGTTCATGGACCGCGTTATTTCAGTGGAGTATGCTGTTCGTGATGATGATGATAGAAGAAATGGTCACAGTCCTGATAGAAGGGGCCGTGATACGTCTCCTGAGAGGAGAAGAAGCAATGATTGTGGGCGATCTCCAAGTCCATACCGCAGAGATAGGGCTAGTCCGGATTATGGCCATGGTTCCCGTCAGAATTCTAGAGCTGAACCAAGAAGAAGTCCTGAGTATGATAGAGCTCCAAGAAGAAGTCCTGATTATGAGAGAGCCGCAAGCCCAGTCAATGATAGATACCACAGCCGTTCACCCCCAGCGCGGGAAAGATCTCGATCCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

ko03040 ko05168 map03040 map05168

Pfam Domains

Protein Families

RRM_1 RrnaAD

Protein Analysis

262

Amino Acids

30.9

Weight (kDa)

9.98

Isoelectric Point (pI)

73.75

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	4 - 62	8e-15	RNA recognition motif
RRM_1	PF00076	97 - 159	1.2e-12	RNA recognition motif

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

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

Orthologous Genes (Group: OG0000932)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G25500 AT4G25500 AT4G25500 AT4G25500 AT4G25500 AT4G25500 AT4G25500 AT4G25500 AT5G52040 AT5G52040 AT5G52040 AT5G52040 AT5G52040 AT5G52040 AT5G52040
fragaria_vesca	FvH4_7g13160 FvH4_7g13160 FvH4_7g13160 FvH4_7g13160 FvH4_7g13160 FvH4_7g13160 FvH4_7g28991 FvH4_7g28991 FvH4_7g28991 FvH4_7g28991 FvH4_7g28991
malus_domestica	MD01G1051400.v1.1 MD01G1196700.v1.1 MD07G1128300.v1.1 MD07G1264000.v1.1
prunus_persica	Prupe.2G154900_v2.0.a1 Prupe.2G154900_v2.0.a1 Prupe.2G154900_v2.0.a1 Prupe.2G290100_v2.0.a1 Prupe.2G290100_v2.0.a1 Prupe.2G290100_v2.0.a1 Prupe.2G290100_v2.0.a1
pyrus_communis	pycom01g07610 pycom07g12390 pycom07g24260
rosa_chinensis	RchiOBHm_Chr1g0352321 RchiOBHm_Chr1g0376701
rosa_laevigata	RLG00000026578 RLG00000028343
rosa_multiflora	Rmu_co8401165.1_g000001 Rmu_sc0009691.1_g000002
rosa_roxburghii	Rroxscaffold_4G00281870 Rroxscaffold_4G00303030
rosa_rugosa	Rorug01G0226500 Rorug01G0226600 Rorug01G0226700 Rorug01G0226700 Rorug01G0397600
rosa_samantha	Rh1AG241000 Rh1AG414700 Rh1BG211800 Rh1BG374100 Rh1CG224800 Rh1CG388000 Rh1DG238200 Rh1DG404900
rosa_wichuraiana	Rw1G020870 Rw1G020950 Rw1G036370

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccBSI	CCGCTC	1 cut(s)	58
AccII	CGCG	3 cut(s)	228, 471, 769
AccIII	TCCGGA	1 cut(s)	622
AciI	CCGC	6 cut(s)	58, 228, 469, 604, 723, 769
AclWI	GGATC	3 cut(s)	302, 339, 777
AcoI	YGGCCR	1 cut(s)	631
AcsI	RAATTY	4 cut(s)	176, 388, 448, 649
AcyI	GRCGYC	1 cut(s)	193
AfiI	CCNNNNNNNGG	4 cut(s)	327, 629, 768, 769
AgsI	TTSAA	4 cut(s)	67, 252, 404, 453
AjnI	CCWGG	1 cut(s)	320
AluBI	AGCT	3 cut(s)	163, 659, 692
AluI	AGCT	3 cut(s)	163, 659, 692
Alw21I	GWGCWC	1 cut(s)	694
Alw26I	GTCTC	1 cut(s)	558
AlwI	GGATC	3 cut(s)	302, 339, 777
Aor13HI	TCCGGA	1 cut(s)	622
AoxI	GGCC	2 cut(s)	541, 631
ApoI	RAATTY	4 cut(s)	176, 388, 448, 649
ArsI	GACNNNNNNTTYG	2 cut(s)	183, 215
AspLEI	GCGC	1 cut(s)	769
AspS9I	GGNCC	3 cut(s)	213, 466, 541
AsuHPI	GGTGA	1 cut(s)	750
AsuII	TTCGAA	1 cut(s)	157
AvaII	GGWCC	2 cut(s)	213, 466
BalI	TGGCCA	1 cut(s)	633
BanII	GRGCYC	1 cut(s)	694
BbsI	GAAGAC	1 cut(s)	191
Bbv12I	GWGCWC	1 cut(s)	694
BceAI	ACGGC	3 cut(s)	180, 528, 738
BcgI	CGANNNNNNTGC	2 cut(s)	27, 61
BciT130I	CCWGG	1 cut(s)	322
BcoDI	GTCTC	1 cut(s)	558
BfaI	CTAG	2 cut(s)	618, 654
BglII	AGATCT	2 cut(s)	239, 776
BisI	GCNGC	2 cut(s)	59, 723
BlsI	GCNGC	2 cut(s)	60, 724
Bme1390I	CCNGG	1 cut(s)	322
Bme18I	GGWCC	2 cut(s)	213, 466
BmgT120I	GGNCC	3 cut(s)	213, 466, 541
BmiI	GGNNCC	2 cut(s)	542, 640
BmrFI	CCNGG	1 cut(s)	322
BmrI	ACTGGG	1 cut(s)	725
BmsI	GCATC	4 cut(s)	25, 130, 412, 430
BmuI	ACTGGG	1 cut(s)	725
BpiI	GAAGAC	1 cut(s)	191
BpmI	CTGGAG	1 cut(s)	356
Bpu14I	TTCGAA	1 cut(s)	157
BsaBI	GATNNNNATC	1 cut(s)	781
BsaHI	GRCGYC	1 cut(s)	193
BsaJI	CCNNGG	1 cut(s)	634
BsaWI	WCCGGW	1 cut(s)	622
Bsc4I	CCNNNNNNNGG	4 cut(s)	327, 629, 768, 769
Bse1I	ACTGG	1 cut(s)	731
Bse3DI	GCAATG	1 cut(s)	580
Bse8I	GATNNNNATC	1 cut(s)	781
BseAI	TCCGGA	1 cut(s)	622
BseBI	CCWGG	1 cut(s)	322
BseDI	CCNNGG	1 cut(s)	634
BseGI	GGATG	5 cut(s)	55, 100, 133, 427, 445
BseJI	GATNNNNATC	1 cut(s)	781
BseLI	CCNNNNNNNGG	4 cut(s)	327, 629, 768, 769
BseMI	GCAATG	1 cut(s)	580
BseMII	CTCAG	3 cut(s)	135, 549, 669
BseNI	ACTGG	1 cut(s)	731
BseRI	GAGGAG	1 cut(s)	577
BseYI	CCCAGC	1 cut(s)	763
Bsh1236I	CGCG	3 cut(s)	228, 471, 769
BshFI	GGCC	2 cut(s)	543, 633
BsiHKAI	GWGCWC	1 cut(s)	694
BsiSI	CCGG	1 cut(s)	623
BslFI	GGGAC	1 cut(s)	204
BslI	CCNNNNNNNGG	4 cut(s)	327, 629, 768, 769
BsmAI	GTCTC	1 cut(s)	558
BsmBI	CGTCTC	1 cut(s)	558
BsmFI	GGGAC	1 cut(s)	204
BsnI	GGCC	2 cut(s)	543, 633
Bsp119I	TTCGAA	1 cut(s)	157
Bsp1286I	GDGCHC	1 cut(s)	694
Bsp13I	TCCGGA	1 cut(s)	622
Bsp143I	GATC	7 cut(s)	239, 307, 331, 349, 587, 776, 782
Bsp19I	CCATGG	1 cut(s)	634
BspACI	CCGC	6 cut(s)	58, 228, 469, 604, 723, 769
BspANI	GGCC	2 cut(s)	543, 633
BspCNI	CTCAG	3 cut(s)	136, 550, 670
BspEI	TCCGGA	1 cut(s)	622
BspFNI	CGCG	3 cut(s)	228, 471, 769
BspLI	GGNNCC	2 cut(s)	542, 640
BspPI	GGATC	3 cut(s)	302, 339, 777
BspT104I	TTCGAA	1 cut(s)	157
BsrBI	CCGCTC	1 cut(s)	58
BsrDI	GCAATG	1 cut(s)	580
BsrI	ACTGG	1 cut(s)	731
BssECI	CCNNGG	1 cut(s)	634
BssMI	GATC	7 cut(s)	239, 307, 331, 349, 587, 776, 782
BssNI	GRCGYC	1 cut(s)	193
BssT1I	CCWWGG	1 cut(s)	634
Bst2UI	CCWGG	1 cut(s)	322
Bst4CI	ACNGT	1 cut(s)	527
BstACI	GRCGYC	1 cut(s)	193
BstAPI	GCANNNNNTGC	1 cut(s)	440
BstBI	TTCGAA	1 cut(s)	157
BstC8I	GCNNGC	1 cut(s)	727
BstDEI	CTNAG	3 cut(s)	144, 558, 678
BstDSI	CCRYGG	1 cut(s)	634
BstF5I	GGATG	5 cut(s)	55, 100, 133, 427, 445
BstFNI	CGCG	3 cut(s)	228, 471, 769
BstHHI	GCGC	1 cut(s)	769
BstKTI	GATC	7 cut(s)	242, 310, 334, 352, 590, 779, 785
BstMAI	GTCTC	1 cut(s)	558
BstMBI	GATC	7 cut(s)	239, 307, 331, 349, 587, 776, 782
BstMWI	GCNNNNNNNGC	3 cut(s)	149, 431, 440
BstNI	CCWGG	1 cut(s)	322
BstSCI	CCNGG	1 cut(s)	320
BstUI	CGCG	3 cut(s)	228, 471, 769
BstV2I	GAAGAC	1 cut(s)	191
BstX2I	RGATCY	3 cut(s)	239, 331, 776
BstXI	CCANNNNNNTGG	1 cut(s)	436
BstYI	RGATCY	3 cut(s)	239, 331, 776
BsuRI	GGCC	2 cut(s)	543, 633
BtgI	CCRYGG	1 cut(s)	634
BtsCI	GGATG	5 cut(s)	55, 100, 133, 427, 445
BtsIMutI	CAGTG	1 cut(s)	486
Cac8I	GCNNGC	1 cut(s)	727
CfoI	GCGC	1 cut(s)	769
Cfr13I	GGNCC	3 cut(s)	213, 466, 541
CseI	GACGC	1 cut(s)	201
CspCI	CAANNNNNGTGG	2 cut(s)	562, 597
CviAII	CATG	3 cut(s)	221, 463, 635
DdeI	CTNAG	3 cut(s)	144, 558, 678
DpnI	GATC	7 cut(s)	241, 309, 333, 351, 589, 778, 784
DpnII	GATC	7 cut(s)	239, 307, 331, 349, 587, 776, 782
EaeI	YGGCCR	1 cut(s)	631
Ecl136II	GAGCTC	1 cut(s)	692
Eco130I	CCWWGG	1 cut(s)	634
Eco24I	GRGCYC	1 cut(s)	694
Eco47I	GGWCC	2 cut(s)	213, 466
Eco53kI	GAGCTC	1 cut(s)	692
EcoICRI	GAGCTC	1 cut(s)	692
EcoRI	GAATTC	1 cut(s)	649
EcoRII	CCWGG	1 cut(s)	320
EcoT14I	CCWWGG	1 cut(s)	634
EcoT38I	GRGCYC	1 cut(s)	694
ErhI	CCWWGG	1 cut(s)	634
Esp3I	CGTCTC	1 cut(s)	558
FaeI	CATG	3 cut(s)	224, 466, 638
FaqI	GGGAC	1 cut(s)	204
FatI	CATG	3 cut(s)	220, 462, 634
FauI	CCCGC	2 cut(s)	221, 762
Fnu4HI	GCNGC	2 cut(s)	59, 723
FokI	GGATG	5 cut(s)	62, 107, 140, 434, 452
FriOI	GRGCYC	1 cut(s)	694
Fsp4HI	GCNGC	2 cut(s)	59, 723
FspBI	CTAG	2 cut(s)	618, 654
GlaI	GCGC	1 cut(s)	768
GluI	GCNGC	2 cut(s)	59, 723
GsaI	CCCAGC	1 cut(s)	767
GsuI	CTGGAG	1 cut(s)	356
HaeIII	GGCC	2 cut(s)	543, 633
HapII	CCGG	1 cut(s)	623
HgaI	GACGC	1 cut(s)	201
HhaI	GCGC	1 cut(s)	769
Hin1I	GRCGYC	1 cut(s)	193
Hin1II	CATG	3 cut(s)	224, 466, 638
Hin6I	GCGC	1 cut(s)	767
HinP1I	GCGC	1 cut(s)	767
HindIII	AAGCTT	1 cut(s)	161
HinfI	GANTC	2 cut(s)	248, 410
HpaII	CCGG	1 cut(s)	623
HphI	GGTGA	1 cut(s)	750
Hpy166II	GTNNAC	2 cut(s)	213, 758
Hpy188I	TCNGA	3 cut(s)	49, 244, 648
Hpy8I	GTNNAC	2 cut(s)	213, 758
HpyAV	CCTTC	3 cut(s)	73, 181, 531
HpyCH4III	ACNGT	1 cut(s)	527
HpyCH4IV	ACGT	1 cut(s)	551
HpyCH4V	TGCA	4 cut(s)	38, 152, 395, 443
HpyF10VI	GCNNNNNNNGC	3 cut(s)	149, 431, 440
HpyF3I	CTNAG	3 cut(s)	144, 558, 678
HpySE526I	ACGT	1 cut(s)	551
Hsp92I	GRCGYC	1 cut(s)	193
Hsp92II	CATG	3 cut(s)	224, 466, 638
HspAI	GCGC	1 cut(s)	767
Kpn2I	TCCGGA	1 cut(s)	622
Kzo9I	GATC	7 cut(s)	239, 307, 331, 349, 587, 776, 782
LmnI	GCTCC	1 cut(s)	697
LweI	GCATC	4 cut(s)	25, 130, 412, 430
MaeI	CTAG	2 cut(s)	618, 654
MaeII	ACGT	1 cut(s)	551
MaeIII	GTNAC	1 cut(s)	521
MalI	GATC	7 cut(s)	241, 309, 333, 351, 589, 778, 784
MbiI	CCGCTC	1 cut(s)	58
MboI	GATC	7 cut(s)	239, 307, 331, 349, 587, 776, 782
MboII	GAAGA	6 cut(s)	191, 396, 525, 579, 681, 711
MflI	RGATCY	3 cut(s)	239, 331, 776
MhlI	GDGCHC	1 cut(s)	694
MlsI	TGGCCA	1 cut(s)	633
MluCI	AATT	6 cut(s)	153, 176, 301, 388, 448, 649
MluNI	TGGCCA	1 cut(s)	633
MnlI	CCTC	3 cut(s)	289, 412, 555
Mox20I	TGGCCA	1 cut(s)	633
MroI	TCCGGA	1 cut(s)	622
MscI	TGGCCA	1 cut(s)	633
MseI	TTAA	1 cut(s)	99
Msp20I	TGGCCA	1 cut(s)	633
MspI	CCGG	1 cut(s)	623
MspR9I	CCNGG	1 cut(s)	322
MvaI	CCWGG	1 cut(s)	322
MvnI	CGCG	3 cut(s)	228, 471, 769
MwoI	GCNNNNNNNGC	3 cut(s)	149, 431, 440
NcoI	CCATGG	1 cut(s)	634
NdeII	GATC	7 cut(s)	239, 307, 331, 349, 587, 776, 782
NlaIII	CATG	3 cut(s)	224, 466, 638
NlaIV	GGNNCC	2 cut(s)	542, 640
NmuCI	GTSAC	1 cut(s)	521
NspV	TTCGAA	1 cut(s)	157
PcsI	WCGNNNNNNNCGW	1 cut(s)	199
PfeI	GAWTC	2 cut(s)	248, 410
PflFI	GACNNNGTC	1 cut(s)	195
PkrI	GCNGC	2 cut(s)	60, 724
Psp124BI	GAGCTC	1 cut(s)	694
Psp6I	CCWGG	1 cut(s)	320
PspFI	CCCAGC	1 cut(s)	763
PspGI	CCWGG	1 cut(s)	320
PspN4I	GGNNCC	2 cut(s)	542, 640
PspPI	GGNCC	3 cut(s)	213, 466, 541
PsuI	RGATCY	3 cut(s)	239, 331, 776
PsyI	GACNNNGTC	1 cut(s)	195
SacI	GAGCTC	1 cut(s)	694
SaqAI	TTAA	1 cut(s)	99
SatI	GCNGC	2 cut(s)	59, 723
Sau3AI	GATC	7 cut(s)	239, 307, 331, 349, 587, 776, 782
Sau96I	GGNCC	3 cut(s)	213, 466, 541
ScrFI	CCNGG	1 cut(s)	322
SduI	GDGCHC	1 cut(s)	694
SetI	ASST	5 cut(s)	84, 165, 554, 661, 694
SfaNI	GCATC	4 cut(s)	25, 130, 412, 430
SfuI	TTCGAA	1 cut(s)	157
SinI	GGWCC	2 cut(s)	213, 466
Sse9I	AATT	6 cut(s)	153, 176, 301, 388, 448, 649
SsiI	CCGC	6 cut(s)	58, 228, 469, 604, 723, 769
SspMI	CTAG	2 cut(s)	618, 654
SstI	GAGCTC	1 cut(s)	694
StyD4I	CCNGG	1 cut(s)	320
StyI	CCWWGG	1 cut(s)	634
TaaI	ACNGT	1 cut(s)	527
TaiI	ACGT	1 cut(s)	554
TaqI	TCGA	4 cut(s)	54, 84, 157, 781
TasI	AATT	6 cut(s)	153, 176, 301, 388, 448, 649
TauI	GCSGC	2 cut(s)	61, 725
TfiI	GAWTC	2 cut(s)	248, 410
Tru1I	TTAA	1 cut(s)	99
Tru9I	TTAA	1 cut(s)	99
TscAI	CASTG	1 cut(s)	486
TseFI	GTSAC	1 cut(s)	521
Tsp45I	GTSAC	1 cut(s)	521
TspDTI	ATGAA	4 cut(s)	17, 237, 423, 451
TspRI	CASTG	1 cut(s)	486
Tth111I	GACNNNGTC	1 cut(s)	195
VpaK11BI	GGWCC	2 cut(s)	213, 466
XapI	RAATTY	4 cut(s)	176, 388, 448, 649
XbaI	TCTAGA	1 cut(s)	653
XspI	CTAG	2 cut(s)	618, 654

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