Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7D

Orthogroup ID

OG0002496

Physical Location & Seq

Genomic Coordinates Reverse (-)

7491853 .. 7496861

Gene Structure 5009 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7DG089200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1110 bp

ATGGCAGTGGTTGAGAATCTCGAGAATGCTGGGGTGGAGTTGGGGAAGACCGTGGGGTCCGCCTCAGGGAATCGGAACCCGGAGGTTACGACGGAGCAGCCATCGGCGGCTGCTGCTGGTGTTGCCGTGACATCCAACGATCAGGATCAGTCCTCGGCCAAGCACGGGCCTTTACGGCAGCGGCTCGAGGCGGCTCTACAGCAGCAGCAGCAGTACGCGATGGTAAACGGTAACGGTAACGGGAACCAGAACGGTCAGCTGAGCTTCGATCAGGTGGTGCATCACCAGCAGCGATCTAACGGCGAGATGAACGGCGGGGATCACCACAACGTGGGGGACAGCTTCAATCGGGACATGAGGGAGCTGAGGGAGCTCTTCTCTAAGCTCAACCCCATGGCGGAGGAGTTTGTGCCTCCCTCACATGCTAACAACAACCATGGAATCAACGGTGGGTTTGTTGACTTCACCGCACTGATGATGCAGAATGGAAACAGAATCGGACAAATTAACGGTGGTGGTTTTCCCGGCCGACGAAGGAATAATCAAGGAAAGAGGAGAATGAACAGCAGGACCAGTCTAGCCCAGCGAGAAGATAGAATTCGAAGGACTGTGTATGTGTCTGACATTGATCAACAGGTCACTGAGGAACAGCTCGCAGCTCTATTCGTTACTTGTGGGCAGGTTGTTGACTGCCGAATTTGTGGTGACCCGAATTCTGTACTCCGTTTTGCCTTTATTGAGTTCACTGATGAAGAAGGTGCAAGGGCTGCTTTGAGTCTTGCCGGGACAATGCTTGGGTTCTACCCTGTGAGGGTGTTGCCTTCTAAGACAGCTATTGCACCTGTTAACCCAACATTCTTGCCTCGGACTGAAGATGAACGTGAGATGTGTGCAAGAACGATATACTGTACAAATATTGACAAGAAGGTTTCTCAAGCTGATGTTAAGCTCTTTTTTGAATCAGTTTGTGGAGAGGTTTATCGTCTGAGGCTGCTGGGAGACTATCACCACTCCACTCGTATTGCATTTGTTGAGTTTGTGATGGTATTTATCTCTTCCTCTAATCTTGCATTTGTATTTTCTGTTTTTTTTTTTTTCTTTTCATATTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0016604 GO:0016607 GO:0031974 GO:0031981 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0070013 GO:0097159 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PAM2 RRM_1

Protein Analysis

369

Amino Acids

40.95

Weight (kDa)

6.16

Isoelectric Point (pI)

38.33

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PAM2	PF07145	125 - 141	7.8e-06	Ataxin-2 C-terminal region
RRM_1	PF00076	204 - 266	2.3e-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

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Orthologous Genes (Group: OG0002496)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G32790 AT1G32790 AT4G10610 AT4G10610
fragaria_vesca	FvH4_5g10630 FvH4_5g10630 FvH4_7g32841 FvH4_7g32841 FvH4_7g32841 FvH4_7g32841 FvH4_7g32841
malus_domestica	MD01G1227700.v1.1 MD06G1121700.v1.1 MD07G1298200.v1.1 MD14G1138200.v1.1
prunus_persica	Prupe.2G318100_v2.0.a1 Prupe.2G318100_v2.0.a1 Prupe.2G318100_v2.0.a1 Prupe.5G132400_v2.0.a1
pyrus_communis	pycom01g23600 pycom06g11280 pycom07g27070 pycom14g11330
rosa_chinensis	RchiOBHm_Chr1g0382781 RchiOBHm_Chr7g0187511
rosa_laevigata	RLG00000004775 RLG00000026160
rosa_multiflora	Rmu_sc0003389.1_g000001 Rmu_sc0019127.1_g000002
rosa_roxburghii	Rroxscaffold_3G00267370 Rroxscaffold_4G00277910
rosa_rugosa	Rorug01G0435800 Rorug06G0482100
rosa_samantha	Rh1AG461100 Rh1BG417800 Rh1DG450000 Rh7BG088300 Rh7CG087600 Rh7DG089200
rosa_wichuraiana	Rw1G041060 Rw7G007660

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	55
Acc36I	ACCTGC	1 cut(s)	670
AccB7I	CCANNNNNTGG	1 cut(s)	331
AccII	CGCG	1 cut(s)	218
AciI	CCGC	7 cut(s)	60, 107, 181, 191, 315, 398, 468
AclWI	GGATC	2 cut(s)	153, 327
AcoI	YGGCCR	2 cut(s)	156, 526
AcsI	RAATTY	3 cut(s)	597, 696, 712
AcuI	CTGAAG	1 cut(s)	891
AdeI	CACNNNGTG	1 cut(s)	331
AfaI	GTAC	3 cut(s)	215, 720, 910
AfiI	CCNNNNNNNGG	5 cut(s)	66, 165, 331, 397, 811
AgsI	TTSAA	2 cut(s)	346, 959
Alw21I	GWGCWC	1 cut(s)	375
Alw26I	GTCTC	1 cut(s)	993
AlwI	GGATC	2 cut(s)	153, 327
Ama87I	CYCGRG	2 cut(s)	20, 185
AoxI	GGCC	3 cut(s)	156, 167, 526
ApoI	RAATTY	3 cut(s)	597, 696, 712
AspS9I	GGNCC	3 cut(s)	57, 167, 570
AsuC2I	CCSGG	3 cut(s)	80, 525, 784
AsuHPI	GGTGA	5 cut(s)	275, 314, 457, 716, 998
AsuII	TTCGAA	1 cut(s)	601
AvaI	CYCGRG	2 cut(s)	20, 185
AvaII	GGWCC	2 cut(s)	57, 570
AxyI	CCTNAGG	1 cut(s)	64
BanII	GRGCYC	1 cut(s)	375
BbsI	GAAGAC	1 cut(s)	53
Bbv12I	GWGCWC	1 cut(s)	375
BbvCI	CCTCAGC	1 cut(s)	365
BccI	CCATC	3 cut(s)	109, 214, 1036
BceAI	ACGGC	4 cut(s)	110, 191, 316, 328
BclI	TGATCA	1 cut(s)	628
BcnI	CCSGG	3 cut(s)	80, 525, 784
BcoDI	GTCTC	1 cut(s)	993
BfaI	CTAG	1 cut(s)	578
BfmI	CTRYAG	1 cut(s)	197
BfuAI	ACCTGC	1 cut(s)	670
BglI	GCCNNNNNGGC	1 cut(s)	175
BlpI	GCTNAGC	1 cut(s)	260
Bme1390I	CCNGG	3 cut(s)	80, 525, 784
Bme18I	GGWCC	2 cut(s)	57, 570
BmeT110I	CYCGRG	2 cut(s)	20, 185
BmgT120I	GGNCC	3 cut(s)	57, 167, 570
BmiI	GGNNCC	3 cut(s)	58, 77, 245
BmrFI	CCNGG	3 cut(s)	80, 525, 784
BmsI	GCATC	2 cut(s)	289, 468
BpiI	GAAGAC	1 cut(s)	53
BplI	GAGNNNNNCTC	2 cut(s)	362, 394
Bpu10I	CCTNAGC	1 cut(s)	365
Bpu1102I	GCTNAGC	1 cut(s)	260
Bpu14I	TTCGAA	1 cut(s)	601
BpuEI	CTTGAG	1 cut(s)	918
BpuMI	CCSGG	3 cut(s)	80, 525, 784
BsaBI	GATNNNNATC	1 cut(s)	144
BsaJI	CCNNGG	5 cut(s)	51, 153, 393, 436, 863
Bsc4I	CCNNNNNNNGG	5 cut(s)	66, 165, 331, 397, 811
Bse1I	ACTGG	1 cut(s)	573
Bse21I	CCTNAGG	1 cut(s)	64
Bse8I	GATNNNNATC	1 cut(s)	144
BseDI	CCNNGG	5 cut(s)	51, 153, 393, 436, 863
BseGI	GGATG	1 cut(s)	131
BseJI	GATNNNNATC	1 cut(s)	144
BseLI	CCNNNNNNNGG	5 cut(s)	66, 165, 331, 397, 811
BseMII	CTCAG	5 cut(s)	78, 251, 356, 633, 977
BseNI	ACTGG	1 cut(s)	573
BseRI	GAGGAG	2 cut(s)	416, 568
BseX3I	CGGCCG	1 cut(s)	526
BseYI	CCCAGC	3 cut(s)	29, 582, 994
Bsh1236I	CGCG	1 cut(s)	218
Bsh1285I	CGRYCG	1 cut(s)	529
BshFI	GGCC	3 cut(s)	158, 169, 528
BsiEI	CGRYCG	1 cut(s)	529
BsiHKAI	GWGCWC	1 cut(s)	375
BsiHKCI	CYCGRG	2 cut(s)	20, 185
BsiSI	CCGG	3 cut(s)	80, 525, 783
BslFI	GGGAC	3 cut(s)	350, 365, 799
BslI	CCNNNNNNNGG	5 cut(s)	66, 165, 331, 397, 811
BsmAI	GTCTC	1 cut(s)	993
BsmFI	GGGAC	3 cut(s)	350, 365, 799
BsmI	GAATGC	1 cut(s)	31
BsnI	GGCC	3 cut(s)	158, 169, 528
BsoBI	CYCGRG	2 cut(s)	20, 185
Bsp119I	TTCGAA	1 cut(s)	601
Bsp1286I	GDGCHC	1 cut(s)	375
Bsp1407I	TGTACA	1 cut(s)	908
Bsp143I	GATC	6 cut(s)	139, 145, 268, 293, 319, 628
Bsp1720I	GCTNAGC	1 cut(s)	260
Bsp19I	CCATGG	2 cut(s)	393, 436
BspACI	CCGC	7 cut(s)	60, 107, 181, 191, 315, 398, 468
BspANI	GGCC	3 cut(s)	158, 169, 528
BspCNI	CTCAG	5 cut(s)	77, 252, 357, 634, 978
BspFNI	CGCG	1 cut(s)	218
BspLI	GGNNCC	3 cut(s)	58, 77, 245
BspMI	ACCTGC	1 cut(s)	670
BspPI	GGATC	2 cut(s)	153, 327
BspQI	GCTCTTC	1 cut(s)	380
BspT104I	TTCGAA	1 cut(s)	601
BsrGI	TGTACA	1 cut(s)	908
BsrI	ACTGG	1 cut(s)	573
BssECI	CCNNGG	5 cut(s)	51, 153, 393, 436, 863
BssMI	GATC	6 cut(s)	139, 145, 268, 293, 319, 628
BssT1I	CCWWGG	2 cut(s)	393, 436
Bst4CI	ACNGT	8 cut(s)	52, 230, 236, 254, 449, 512, 610, 908
Bst6I	CTCTTC	2 cut(s)	380, 1060
BstAPI	GCANNNNNTGC	1 cut(s)	767
BstAUI	TGTACA	1 cut(s)	908
BstBI	TTCGAA	1 cut(s)	601
BstC8I	GCNNGC	1 cut(s)	654
BstDEI	CTNAG	7 cut(s)	64, 260, 365, 381, 642, 825, 986
BstDSI	CCRYGG	3 cut(s)	51, 393, 436
BstEII	GGTNACC	1 cut(s)	704
BstF5I	GGATG	1 cut(s)	131
BstFNI	CGCG	1 cut(s)	218
BstKTI	GATC	6 cut(s)	142, 148, 271, 296, 322, 631
BstMAI	GTCTC	1 cut(s)	993
BstMBI	GATC	6 cut(s)	139, 145, 268, 293, 319, 628
BstMCI	CGRYCG	1 cut(s)	529
BstMWI	GCNNNNNNNGC	7 cut(s)	113, 122, 175, 208, 286, 370, 767
BstNSI	RCATGY	1 cut(s)	425
BstPI	GGTNACC	1 cut(s)	704
BstSCI	CCNGG	3 cut(s)	78, 523, 782
BstSFI	CTRYAG	1 cut(s)	197
BstUI	CGCG	1 cut(s)	218
BstV2I	GAAGAC	1 cut(s)	53
BstZI	CGGCCG	1 cut(s)	526
Bsu36I	CCTNAGG	1 cut(s)	64
BsuRI	GGCC	3 cut(s)	158, 169, 528
BtgI	CCRYGG	3 cut(s)	51, 393, 436
BtgZI	GCGATG	1 cut(s)	233
BtsCI	GGATG	1 cut(s)	131
BtsI	GCAGTG	1 cut(s)	12
BtsIMutI	CAGTG	4 cut(s)	12, 470, 639, 744
BveI	ACCTGC	1 cut(s)	670
Cac8I	GCNNGC	1 cut(s)	654
Cfr13I	GGNCC	3 cut(s)	57, 167, 570
Csp6I	GTAC	3 cut(s)	214, 719, 909
CspCI	CAANNNNNGTGG	2 cut(s)	1003, 1038
CviAII	CATG	4 cut(s)	355, 394, 422, 437
CviQI	GTAC	3 cut(s)	214, 719, 909
DdeI	CTNAG	7 cut(s)	64, 260, 365, 381, 642, 825, 986
DpnI	GATC	6 cut(s)	141, 147, 270, 295, 321, 630
DpnII	GATC	6 cut(s)	139, 145, 268, 293, 319, 628
DraIII	CACNNNGTG	1 cut(s)	331
DrdI	GACNNNNNNGTC	1 cut(s)	55
DseDI	GACNNNNNNGTC	1 cut(s)	55
EaeI	YGGCCR	2 cut(s)	156, 526
EagI	CGGCCG	1 cut(s)	526
Eam1104I	CTCTTC	2 cut(s)	380, 1060
EarI	CTCTTC	2 cut(s)	380, 1060
EciI	GGCGGA	2 cut(s)	49, 413
Ecl136II	GAGCTC	1 cut(s)	373
EclXI	CGGCCG	1 cut(s)	526
Eco130I	CCWWGG	2 cut(s)	393, 436
Eco24I	GRGCYC	1 cut(s)	375
Eco47I	GGWCC	2 cut(s)	57, 570
Eco52I	CGGCCG	1 cut(s)	526
Eco53kI	GAGCTC	1 cut(s)	373
Eco57I	CTGAAG	1 cut(s)	891
Eco81I	CCTNAGG	1 cut(s)	64
Eco88I	CYCGRG	2 cut(s)	20, 185
Eco91I	GGTNACC	1 cut(s)	704
EcoICRI	GAGCTC	1 cut(s)	373
EcoO65I	GGTNACC	1 cut(s)	704
EcoRI	GAATTC	2 cut(s)	597, 712
EcoT14I	CCWWGG	2 cut(s)	393, 436
EcoT38I	GRGCYC	1 cut(s)	375
ErhI	CCWWGG	2 cut(s)	393, 436
FaeI	CATG	4 cut(s)	358, 397, 425, 440
FaiI	YATR	7 cut(s)	356, 395, 423, 438, 615, 904, 1105
FalI	AAGNNNNNCTT	2 cut(s)	754, 786
FaqI	GGGAC	3 cut(s)	350, 365, 799
FatI	CATG	4 cut(s)	354, 393, 421, 436
FauI	CCCGC	1 cut(s)	308
FbaI	TGATCA	1 cut(s)	628
FokI	GGATG	1 cut(s)	118
FriOI	GRGCYC	1 cut(s)	375
FspBI	CTAG	1 cut(s)	578
GsaI	CCCAGC	3 cut(s)	33, 586, 998
HaeIII	GGCC	3 cut(s)	158, 169, 528
HapII	CCGG	3 cut(s)	80, 525, 783
Hin1II	CATG	4 cut(s)	358, 397, 425, 440
HincII	GTYRAC	3 cut(s)	460, 688, 847
HindII	GTYRAC	3 cut(s)	460, 688, 847
HinfI	GANTC	6 cut(s)	16, 70, 441, 495, 775, 959
HpaI	GTTAAC	1 cut(s)	847
HpaII	CCGG	3 cut(s)	80, 525, 783
HphI	GGTGA	5 cut(s)	275, 314, 457, 716, 998
Hpy166II	GTNNAC	5 cut(s)	226, 460, 688, 744, 847
Hpy188I	TCNGA	5 cut(s)	75, 500, 622, 867, 987
Hpy188III	TCNNGA	4 cut(s)	20, 22, 143, 350
Hpy8I	GTNNAC	5 cut(s)	226, 460, 688, 744, 847
Hpy99I	CGWCG	2 cut(s)	94, 534
HpyAV	CCTTC	5 cut(s)	528, 597, 749, 831, 919
HpyCH4III	ACNGT	8 cut(s)	52, 230, 236, 254, 449, 512, 610, 908
HpyCH4IV	ACGT	2 cut(s)	330, 880
HpyCH4V	TGCA	7 cut(s)	280, 481, 761, 839, 893, 1025, 1070
HpyF10VI	GCNNNNNNNGC	7 cut(s)	113, 122, 175, 208, 286, 370, 767
HpyF3I	CTNAG	7 cut(s)	64, 260, 365, 381, 642, 825, 986
HpySE526I	ACGT	2 cut(s)	330, 880
Hsp92II	CATG	4 cut(s)	358, 397, 425, 440
Ksp22I	TGATCA	1 cut(s)	628
KspAI	GTTAAC	1 cut(s)	847
Kzo9I	GATC	6 cut(s)	139, 145, 268, 293, 319, 628
LguI	GCTCTTC	1 cut(s)	380
LmnI	GCTCC	3 cut(s)	94, 361, 370
LweI	GCATC	2 cut(s)	289, 468
MaeI	CTAG	1 cut(s)	578
MaeII	ACGT	2 cut(s)	330, 880
MaeIII	GTNAC	7 cut(s)	85, 127, 230, 236, 637, 667, 704
MalI	GATC	6 cut(s)	141, 147, 270, 295, 321, 630
MboI	GATC	6 cut(s)	139, 145, 268, 293, 319, 628
MboII	GAAGA	6 cut(s)	58, 367, 602, 764, 884, 1047
MhlI	GDGCHC	1 cut(s)	375
MluCI	AATT	4 cut(s)	504, 597, 696, 712
MlyI	GAGTC	1 cut(s)	784
MmeI	TCCRAC	1 cut(s)	159
MseI	TTAA	3 cut(s)	507, 846, 945
MspA1I	CMGCKG	2 cut(s)	181, 259
MspI	CCGG	3 cut(s)	80, 525, 783
MspR9I	CCNGG	3 cut(s)	80, 525, 784
Mva1269I	GAATGC	1 cut(s)	31
MvnI	CGCG	1 cut(s)	218
MwoI	GCNNNNNNNGC	7 cut(s)	113, 122, 175, 208, 286, 370, 767
NciI	CCSGG	3 cut(s)	80, 525, 784
NcoI	CCATGG	2 cut(s)	393, 436
NdeII	GATC	6 cut(s)	139, 145, 268, 293, 319, 628
NlaIII	CATG	4 cut(s)	358, 397, 425, 440
NlaIV	GGNNCC	3 cut(s)	58, 77, 245
NmeAIII	GCCGAG	1 cut(s)	134
NmuCI	GTSAC	3 cut(s)	127, 637, 704
NspI	RCATGY	1 cut(s)	425
NspV	TTCGAA	1 cut(s)	601
PaeR7I	CTCGAG	2 cut(s)	20, 185
PciSI	GCTCTTC	1 cut(s)	380
PctI	GAATGC	1 cut(s)	31
PfeI	GAWTC	5 cut(s)	16, 70, 441, 495, 959
PflMI	CCANNNNNTGG	1 cut(s)	331
PleI	GAGTC	1 cut(s)	783
PpsI	GAGTC	1 cut(s)	783
Psp124BI	GAGCTC	1 cut(s)	375
PspEI	GGTNACC	1 cut(s)	704
PspFI	CCCAGC	3 cut(s)	29, 582, 994
PspN4I	GGNNCC	3 cut(s)	58, 77, 245
PspPI	GGNCC	3 cut(s)	57, 167, 570
PspXI	VCTCGAGB	1 cut(s)	185
PvuII	CAGCTG	1 cut(s)	259
RsaI	GTAC	3 cut(s)	215, 720, 910
RsaNI	GTAC	3 cut(s)	214, 719, 909
SacI	GAGCTC	1 cut(s)	375
SapI	GCTCTTC	1 cut(s)	380
SaqAI	TTAA	3 cut(s)	507, 846, 945
Sau3AI	GATC	6 cut(s)	139, 145, 268, 293, 319, 628
Sau96I	GGNCC	3 cut(s)	57, 167, 570
SchI	GAGTC	1 cut(s)	784
ScrFI	CCNGG	3 cut(s)	80, 525, 784
SduI	GDGCHC	1 cut(s)	375
SfaNI	GCATC	2 cut(s)	289, 468
SfcI	CTRYAG	1 cut(s)	197
Sfr274I	CTCGAG	2 cut(s)	20, 185
SfuI	TTCGAA	1 cut(s)	601
SinI	GGWCC	2 cut(s)	57, 570
SlaI	CTCGAG	2 cut(s)	20, 185
SmlI	CTYRAG	3 cut(s)	20, 185, 933
SmoI	CTYRAG	3 cut(s)	20, 185, 933
Sse9I	AATT	4 cut(s)	504, 597, 696, 712
SsiI	CCGC	7 cut(s)	60, 107, 181, 191, 315, 398, 468
SspI	AATATT	1 cut(s)	916
SspMI	CTAG	1 cut(s)	578
SstI	GAGCTC	1 cut(s)	375
StyD4I	CCNGG	3 cut(s)	78, 523, 782
StyI	CCWWGG	2 cut(s)	393, 436
TaaI	ACNGT	8 cut(s)	52, 230, 236, 254, 449, 512, 610, 908
TaiI	ACGT	2 cut(s)	333, 883
TaqI	TCGA	4 cut(s)	21, 186, 267, 601
TasI	AATT	4 cut(s)	504, 597, 696, 712
TatI	WGTACW	2 cut(s)	718, 908
TauI	GCSGC	3 cut(s)	110, 184, 194
TfiI	GAWTC	5 cut(s)	16, 70, 441, 495, 959
Tru1I	TTAA	3 cut(s)	507, 846, 945
Tru9I	TTAA	3 cut(s)	507, 846, 945
TscAI	CASTG	4 cut(s)	12, 477, 646, 751
TseFI	GTSAC	3 cut(s)	127, 637, 704
Tsp45I	GTSAC	3 cut(s)	127, 637, 704
TspDTI	ATGAA	5 cut(s)	323, 575, 765, 891, 1092
TspGWI	ACGGA	2 cut(s)	107, 713
TspRI	CASTG	4 cut(s)	12, 477, 646, 751
Van91I	CCANNNNNTGG	1 cut(s)	331
VpaK11BI	GGWCC	2 cut(s)	57, 570
XapI	RAATTY	3 cut(s)	597, 696, 712
XceI	RCATGY	1 cut(s)	425
XhoI	CTCGAG	2 cut(s)	20, 185
XspI	CTAG	1 cut(s)	578

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