Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7B

Orthogroup ID

OG0001558

Physical Location & Seq

Genomic Coordinates Forward (+)

12769062 .. 12773035

Gene Structure 3974 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7BG164600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 654 bp

ATGCCATACACGAGAGCAAAAAGGTCTGCTTCACCACAGACCTCTGTCTCACCTGTCAAAGGCCGCCGATCAAGATCATTGTCGAGGTCTAGAAGGAGTCGTTCTAGGAGCCCATCTGTGGATGCAAACAATCCTGGAAACAACTTGTATGTAACAGGCTTATCCACAAGGGTTACCTCTGCTGATGTTGAGAAATTCTTTAACAAAGAAGGCAAGGTGTTGGAGTGCCATCTTGTAACTGACCCTCGCTCCAGAGAATCTCGTGGATTTGCATTTGTCACAATGGAAACTGTAGAGGATGCAGAGCGATGCATTAAGTACTTGAATCGTTCTGTGCTTGAAGGTCGACTAGTCACTGTGGAAAAGGCGAAGAGGAAGCGAGGGAGGACACCTACTCCAGGAAGGTATCAAGGGTTGAGAGATAAGCGAGATGCAGGACGTGATCGTGGAGATCGTGATTATGGTGACCGTGACCGTGACCGTGATCGTGATCGTGATCGTAGAAGATCTCGTAGCTATTCACCTCGTAGGCGGAAAGACAGAGAGCCTCCTTCCAGGGACAACCGCCGAGGAAGATCACGTTCTCCACCAGCTAGGGATAGGAGGGTGGATGAGCATTCAGACTCGTATAGGAGGCGCATGGATCACTCCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0005488 GO:0006325 GO:0006464 GO:0006473 GO:0006475 GO:0006807 GO:0006996 GO:0008150 GO:0008152 GO:0009987 GO:0016043 GO:0016569 GO:0016570 GO:0016573 GO:0018193 GO:0018205 GO:0018393 GO:0018394 GO:0019538 GO:0036211 GO:0043170 GO:0043412 GO:0043543 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0051276 GO:0071704 GO:0071840 GO:0097159 GO:1901363 GO:1901564

KEGG Pathways

Metabolic & Signaling

ko03040 map03040

Pfam Domains

Protein Families

RRM_1

Protein Analysis

217

Amino Acids

25.41

Weight (kDa)

11.33

Isoelectric Point (pI)

90.25

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	49 - 118	8.9e-17	RNA recognition motif

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0001558)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G35785 AT4G35785 AT4G35785 AT4G35785 AT4G35785 AT4G35785
fragaria_vesca	FvH4_1g10991 FvH4_1g10991 FvH4_5g02820
malus_domestica	MD02G1123000.v1.1 MD06G1087700.v1.1 MD15G1237000.v1.1
prunus_persica	Prupe.5G103800_v2.0.a1 Prupe.5G103800_v2.0.a1 Prupe.7G175500_v2.0.a1 Prupe.7G175500_v2.0.a1 Prupe.7G175500_v2.0.a1 Prupe.7G175500_v2.0.a1
pyrus_communis	pycom02g09590 pycom06g08380 pycom15g21080
rosa_chinensis	RchiOBHm_Chr2g0098261 RchiOBHm_Chr4g0436561 RchiOBHm_Chr5g0052501 RchiOBHm_Chr6g0253581 RchiOBHm_Chr7g0197131
rosa_laevigata	RLG00000016780
rosa_multiflora	Rmu_sc0000441.1_g000019 Rmu_sc0002754.1_g000021 Rmu_sc0009183.1_g000006 Rmu_ssc0000465.1_g000024
rosa_roxburghii	Rroxscaffold_2G00144110 Rroxscaffold_3G00258670
rosa_rugosa	Rorug02G0071700 Rorug07G0037800 Rorug07G0037900 Rorug07G0038000
rosa_samantha	Rh2AG118700 Rh2AG118800 Rh2DG123400 Rh3DG184500 Rh3DG353300 Rh6DG075300 Rh7AG162600 Rh7BG164600
rosa_wichuraiana	Rw0G023370 Rw1G013400 Rw4G028610 Rw5G028060 Rw7G014190

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	346
AciI	CCGC	3 cut(s)	64, 532, 565
AclWI	GGATC	1 cut(s)	651
AcsI	RAATTY	1 cut(s)	194
AfaI	GTAC	1 cut(s)	320
AfiI	CCNNNNNNNGG	3 cut(s)	59, 118, 398
AgsI	TTSAA	2 cut(s)	325, 341
AhlI	ACTAGT	1 cut(s)	349
AjiI	CACGTC	1 cut(s)	440
AjnI	CCWGG	3 cut(s)	133, 397, 554
AluBI	AGCT	2 cut(s)	516, 593
AluI	AGCT	2 cut(s)	516, 593
Alw26I	GTCTC	1 cut(s)	52
AlwI	GGATC	1 cut(s)	651
AoxI	GGCC	1 cut(s)	61
ApoI	RAATTY	1 cut(s)	194
AspLEI	GCGC	1 cut(s)	639
AsuHPI	GGTGA	4 cut(s)	24, 42, 476, 513
BanII	GRGCYC	1 cut(s)	113
BauI	CACGAG	2 cut(s)	10, 261
BccI	CCATC	2 cut(s)	121, 237
BciT130I	CCWGG	3 cut(s)	135, 399, 556
BcoDI	GTCTC	1 cut(s)	52
BcuI	ACTAGT	1 cut(s)	349
BfaI	CTAG	4 cut(s)	90, 105, 350, 594
BfmI	CTRYAG	1 cut(s)	291
BglII	AGATCT	1 cut(s)	506
BisI	GCNGC	1 cut(s)	64
BlsI	GCNGC	1 cut(s)	65
BmcAI	AGTACT	1 cut(s)	320
Bme1390I	CCNGG	3 cut(s)	135, 399, 556
BmgBI	CACGTC	1 cut(s)	440
BmiI	GGNNCC	1 cut(s)	110
BmrFI	CCNGG	3 cut(s)	135, 399, 556
BmsI	GCATC	4 cut(s)	112, 289, 299, 421
BoxI	GACNNNNGTC	1 cut(s)	44
BpmI	CTGGAG	2 cut(s)	235, 381
BsaBI	GATNNNNATC	3 cut(s)	73, 489, 495
BsaJI	CCNNGG	2 cut(s)	555, 568
BsaXI	ACNNNNNCTCC	4 cut(s)	233, 263, 379, 409
Bsc4I	CCNNNNNNNGG	3 cut(s)	59, 118, 398
Bse8I	GATNNNNATC	3 cut(s)	73, 489, 495
BseBI	CCWGG	3 cut(s)	135, 399, 556
BseDI	CCNNGG	2 cut(s)	555, 568
BseGI	GGATG	3 cut(s)	127, 304, 616
BseJI	GATNNNNATC	3 cut(s)	73, 489, 495
BseLI	CCNNNNNNNGG	3 cut(s)	59, 118, 398
BshFI	GGCC	1 cut(s)	63
BslFI	GGGAC	1 cut(s)	572
BslI	CCNNNNNNNGG	3 cut(s)	59, 118, 398
BsmAI	GTCTC	1 cut(s)	52
BsmFI	GGGAC	1 cut(s)	572
BsmI	GAATGC	1 cut(s)	616
BsnI	GGCC	1 cut(s)	63
Bsp1286I	GDGCHC	1 cut(s)	113
BspACI	CCGC	3 cut(s)	64, 532, 565
BspANI	GGCC	1 cut(s)	63
BspLI	GGNNCC	1 cut(s)	110
BspPI	GGATC	1 cut(s)	651
BssECI	CCNNGG	2 cut(s)	555, 568
BssSI	CACGAG	2 cut(s)	10, 261
Bst2BI	CACGAG	2 cut(s)	10, 261
Bst2UI	CCWGG	3 cut(s)	135, 399, 556
Bst4CI	ACNGT	5 cut(s)	292, 358, 470, 476, 482
Bst6I	CTCTTC	1 cut(s)	365
BstEII	GGTNACC	2 cut(s)	172, 464
BstENI	CCTNNNNNAGG	2 cut(s)	57, 396
BstF5I	GGATG	3 cut(s)	127, 304, 616
BstHHI	GCGC	1 cut(s)	639
BstMAI	GTCTC	1 cut(s)	52
BstNI	CCWGG	3 cut(s)	135, 399, 556
BstPAI	GACNNNNGTC	1 cut(s)	44
BstPI	GGTNACC	2 cut(s)	172, 464
BstSCI	CCNGG	3 cut(s)	133, 397, 554
BstSFI	CTRYAG	1 cut(s)	291
BstX2I	RGATCY	1 cut(s)	506
BstYI	RGATCY	1 cut(s)	506
BsuRI	GGCC	1 cut(s)	63
BtgZI	GCGATG	1 cut(s)	322
BtrI	CACGTC	1 cut(s)	440
BtsCI	GGATG	3 cut(s)	127, 304, 616
BtsIMutI	CAGTG	1 cut(s)	354
CfoI	GCGC	1 cut(s)	639
Csp6I	GTAC	1 cut(s)	319
CviAII	CATG	1 cut(s)	640
CviJI	RGCY	6 cut(s)	63, 111, 159, 516, 547, 593
CviKI_1	RGCY	6 cut(s)	63, 111, 159, 516, 547, 593
CviQI	GTAC	1 cut(s)	319
Eam1104I	CTCTTC	1 cut(s)	365
EarI	CTCTTC	1 cut(s)	365
EciI	GGCGGA	1 cut(s)	547
Eco24I	GRGCYC	1 cut(s)	113
Eco91I	GGTNACC	2 cut(s)	172, 464
EcoNI	CCTNNNNNAGG	2 cut(s)	57, 396
EcoO65I	GGTNACC	2 cut(s)	172, 464
EcoRII	CCWGG	3 cut(s)	133, 397, 554
EcoT22I	ATGCAT	1 cut(s)	314
EcoT38I	GRGCYC	1 cut(s)	113
FaeI	CATG	1 cut(s)	643
FaiI	YATR	5 cut(s)	7, 150, 462, 630, 641
FalI	AAGNNNNNCTT	2 cut(s)	13, 45
FaqI	GGGAC	1 cut(s)	572
FatI	CATG	1 cut(s)	639
FblI	GTMKAC	1 cut(s)	346
Fnu4HI	GCNGC	1 cut(s)	64
FokI	GGATG	3 cut(s)	134, 311, 623
FriOI	GRGCYC	1 cut(s)	113
Fsp4HI	GCNGC	1 cut(s)	64
FspBI	CTAG	4 cut(s)	90, 105, 350, 594
GlaI	GCGC	1 cut(s)	638
GluI	GCNGC	1 cut(s)	64
GsuI	CTGGAG	2 cut(s)	235, 381
HaeIII	GGCC	1 cut(s)	63
HhaI	GCGC	1 cut(s)	639
Hin1II	CATG	1 cut(s)	643
Hin6I	GCGC	1 cut(s)	637
HinP1I	GCGC	1 cut(s)	637
HincII	GTYRAC	1 cut(s)	347
HindII	GTYRAC	1 cut(s)	347
HinfI	GANTC	4 cut(s)	97, 257, 325, 623
HphI	GGTGA	4 cut(s)	24, 42, 476, 513
Hpy166II	GTNNAC	1 cut(s)	347
Hpy188I	TCNGA	1 cut(s)	622
Hpy188III	TCNNGA	7 cut(s)	72, 90, 252, 455, 488, 494, 651
Hpy8I	GTNNAC	1 cut(s)	347
HpyAV	CCTTC	5 cut(s)	87, 203, 335, 396, 561
HpyCH4III	ACNGT	5 cut(s)	292, 358, 470, 476, 482
HpyCH4IV	ACGT	2 cut(s)	439, 580
HpyCH4V	TGCA	5 cut(s)	125, 272, 302, 312, 434
HpySE526I	ACGT	2 cut(s)	439, 580
Hsp92II	CATG	1 cut(s)	643
HspAI	GCGC	1 cut(s)	637
LmnI	GCTCC	2 cut(s)	108, 254
LweI	GCATC	4 cut(s)	112, 289, 299, 421
MaeI	CTAG	4 cut(s)	90, 105, 350, 594
MaeII	ACGT	2 cut(s)	439, 580
MaeIII	GTNAC	8 cut(s)	151, 172, 235, 277, 352, 464, 470, 476
MboII	GAAGA	3 cut(s)	382, 516, 585
MflI	RGATCY	1 cut(s)	506
MhlI	GDGCHC	1 cut(s)	113
MluCI	AATT	1 cut(s)	194
MlyI	GAGTC	2 cut(s)	106, 617
MmeI	TCCRAC	1 cut(s)	201
Mph1103I	ATGCAT	1 cut(s)	314
MseI	TTAA	2 cut(s)	201, 315
MspR9I	CCNGG	3 cut(s)	135, 399, 556
Mva1269I	GAATGC	1 cut(s)	616
MvaI	CCWGG	3 cut(s)	135, 399, 556
NlaIII	CATG	1 cut(s)	643
NlaIV	GGNNCC	1 cut(s)	110
NmeAIII	GCCGAG	1 cut(s)	593
NmuCI	GTSAC	5 cut(s)	277, 352, 464, 470, 476
NsiI	ATGCAT	1 cut(s)	314
PcsI	WCGNNNNNNNCGW	1 cut(s)	451
PctI	GAATGC	1 cut(s)	616
PfeI	GAWTC	2 cut(s)	257, 325
PfoI	TCCNGGA	2 cut(s)	133, 397
PkrI	GCNGC	1 cut(s)	65
PleI	GAGTC	2 cut(s)	105, 617
PpsI	GAGTC	2 cut(s)	105, 617
PshAI	GACNNNNGTC	1 cut(s)	44
Psp6I	CCWGG	3 cut(s)	133, 397, 554
PspEI	GGTNACC	2 cut(s)	172, 464
PspGI	CCWGG	3 cut(s)	133, 397, 554
PspN4I	GGNNCC	1 cut(s)	110
PsuI	RGATCY	1 cut(s)	506
RsaI	GTAC	1 cut(s)	320
RsaNI	GTAC	1 cut(s)	319
SalI	GTCGAC	1 cut(s)	345
SaqAI	TTAA	2 cut(s)	201, 315
SatI	GCNGC	1 cut(s)	64
ScaI	AGTACT	1 cut(s)	320
SchI	GAGTC	2 cut(s)	106, 617
ScrFI	CCNGG	3 cut(s)	135, 399, 556
SduI	GDGCHC	1 cut(s)	113
SfaNI	GCATC	4 cut(s)	112, 289, 299, 421
SfcI	CTRYAG	1 cut(s)	291
SpeI	ACTAGT	1 cut(s)	349
Sse9I	AATT	1 cut(s)	194
SsiI	CCGC	3 cut(s)	64, 532, 565
SspMI	CTAG	4 cut(s)	90, 105, 350, 594
StyD4I	CCNGG	3 cut(s)	133, 397, 554
TaaI	ACNGT	5 cut(s)	292, 358, 470, 476, 482
TaiI	ACGT	2 cut(s)	442, 583
TaqI	TCGA	2 cut(s)	83, 346
TasI	AATT	1 cut(s)	194
TatI	WGTACW	1 cut(s)	318
TauI	GCSGC	1 cut(s)	66
TfiI	GAWTC	2 cut(s)	257, 325
Tru1I	TTAA	2 cut(s)	201, 315
Tru9I	TTAA	2 cut(s)	201, 315
TscAI	CASTG	1 cut(s)	361
TseFI	GTSAC	5 cut(s)	277, 352, 464, 470, 476
Tsp45I	GTSAC	5 cut(s)	277, 352, 464, 470, 476
TspRI	CASTG	1 cut(s)	361
XagI	CCTNNNNNAGG	2 cut(s)	57, 396
XapI	RAATTY	1 cut(s)	194
XbaI	TCTAGA	1 cut(s)	89
XmiI	GTMKAC	1 cut(s)	346
XspI	CTAG	4 cut(s)	90, 105, 350, 594
ZrmI	AGTACT	1 cut(s)	320
Zsp2I	ATGCAT	1 cut(s)	314

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