Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1B

Orthogroup ID

OG0002496

Physical Location & Seq

Genomic Coordinates Reverse (-)

53910079 .. 53915420

Gene Structure 5342 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1BG417800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 990 bp

ATGGCTGTTGCGGAGAATGCACCGAGCTTCGATAACTCATCGGAGTCCAATGCTCAGAGCGATCTCGAAAACCCACCAAAACCCAAAATGGACTCGGCTGCTGTGGTGAGTGTGGACCCCAATTTGCAGTCCAATGGTGGTGGTGATGATCAGAACAATTCTGAGCTGAAGAGCCAGGAGGGTTTGTCAGTCCCCAACCACAAGGCTCAAATGGGCCAGATGCAAAATGGGTTCGAGTCCAATGAGGTGGCTGCTGATGACCATCAGATGGTGAAGGCTGTTGGGTATGGGACTGATCAGAGCTCCAATGGGGATGAGAATTTCAAGAGGGATATGAGGGATTTGGAAGAGTTGTTGTCCAAGTTGAATCCCATGGCTCAGGAATTCATACCTCTAAGCCTTGCCAACAACCAAGGGTTTGCTCTTCCTGGTGGATTTGGCTACTCTAACAATCAGTTGCTGCAGGCCAATTCCGGCAATGGGAATGGATTTATGGGCAAAAGGAAGAAGAATGGCTATAGTAATCAAGCCAAGAGAAGGAACTATTACAAGCTGAGTTTGGCACAGCGAGAGGAGATGATCAGGAGGACTGTGTATGTTTCTGACATTGACCAACAGGTTACTGAAGAGAACCTGGCTGCTCTCTTTATTAATTGTGGACAGGTTGTAGACTGTCGTGTATGTGGTGATCCTAATTCTGTTCTTCGATTTGCTTTTATTGAGTTTACAGATGAAGAAGGTGCAATGGCTGCTTTGAGTCTGTCAGGAACCATGCTTGGCTACTACCCTGTAAGAGTGCTGCCTTCCAAAACTGCAATTGCACCTGTTAACCCAACATTTTTGCCCAGGTCAGATGATGAACGTGAAATGTGCTCAAGAACTATTTATTGTACCAATATTGACAAGAAGGTTACTCAAGCTGATGTCAAACTGTTTTTTGAATCACTTTGTGGAGAGGTTGGTCTATCTATCTGTAAATACTTCTGCTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003729 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

329

Amino Acids

36.14

Weight (kDa)

4.79

Isoelectric Point (pI)

38.25

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	198 - 260	6.6e-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)
AccB7I	CCANNNNNTGG	1 cut(s)	268
AccI	GTMKAC	1 cut(s)	669
AciI	CCGC	1 cut(s)	11
AclWI	GGATC	1 cut(s)	683
AcsI	RAATTY	2 cut(s)	319, 383
AcuI	CTGAAG	2 cut(s)	188, 645
AdeI	CACNNNGTG	1 cut(s)	950
AfaI	GTAC	1 cut(s)	892
AfiI	CCNNNNNNNGG	3 cut(s)	268, 480, 537
AgsI	TTSAA	3 cut(s)	325, 367, 941
AjnI	CCWGG	4 cut(s)	174, 427, 633, 845
AluBI	AGCT	5 cut(s)	27, 166, 303, 553, 920
AluI	AGCT	5 cut(s)	27, 166, 303, 553, 920
Alw21I	GWGCWC	2 cut(s)	305, 875
AlwI	GGATC	1 cut(s)	683
AlwNI	CAGNNNCTG	1 cut(s)	460
AoxI	GGCC	2 cut(s)	214, 465
ApeKI	GCWGC	6 cut(s)	98, 251, 460, 638, 749, 799
ApoI	RAATTY	2 cut(s)	319, 383
AseI	ATTAAT	1 cut(s)	651
AspS9I	GGNCC	2 cut(s)	115, 214
AsuHPI	GGTGA	4 cut(s)	118, 155, 283, 698
AvaII	GGWCC	1 cut(s)	115
BanII	GRGCYC	1 cut(s)	305
Bbv12I	GWGCWC	2 cut(s)	305, 875
BbvI	GCAGC	6 cut(s)	85, 238, 447, 625, 736, 786
BccI	CCATC	2 cut(s)	262, 270
BciT130I	CCWGG	4 cut(s)	176, 429, 635, 847
BclI	TGATCA	3 cut(s)	148, 295, 579
BfaI	CTAG	1 cut(s)	988
BfmI	CTRYAG	2 cut(s)	461, 517
BisI	GCNGC	6 cut(s)	99, 252, 461, 639, 750, 800
BlsI	GCNGC	6 cut(s)	100, 253, 462, 640, 751, 801
Bme1390I	CCNGG	4 cut(s)	176, 429, 635, 847
Bme18I	GGWCC	1 cut(s)	115
BmgT120I	GGNCC	2 cut(s)	115, 214
BmiI	GGNNCC	2 cut(s)	117, 769
BmrFI	CCNGG	4 cut(s)	176, 429, 635, 847
BmsI	GCATC	1 cut(s)	210
Bpu10I	CCTNAGC	1 cut(s)	378
BpuEI	CTTGAG	2 cut(s)	859, 900
BsaBI	GATNNNNATC	1 cut(s)	261
BsaJI	CCNNGG	3 cut(s)	372, 412, 845
BsaXI	ACNNNNNCTCC	2 cut(s)	170, 200
Bsc4I	CCNNNNNNNGG	3 cut(s)	268, 480, 537
Bse3DI	GCAATG	2 cut(s)	484, 750
Bse8I	GATNNNNATC	1 cut(s)	261
BseBI	CCWGG	4 cut(s)	176, 429, 635, 847
BseDI	CCNNGG	3 cut(s)	372, 412, 845
BseGI	GGATG	1 cut(s)	319
BseJI	GATNNNNATC	1 cut(s)	261
BseLI	CCNNNNNNNGG	3 cut(s)	268, 480, 537
BseMI	GCAATG	2 cut(s)	484, 750
BseMII	CTCAG	4 cut(s)	68, 153, 392, 545
BseRI	GAGGAG	1 cut(s)	587
BseXI	GCAGC	6 cut(s)	85, 238, 447, 625, 736, 786
BshFI	GGCC	2 cut(s)	216, 467
BsiHKAI	GWGCWC	2 cut(s)	305, 875
BsiSI	CCGG	1 cut(s)	474
BslFI	GGGAC	2 cut(s)	176, 304
BslI	CCNNNNNNNGG	3 cut(s)	268, 480, 537
BsmFI	GGGAC	2 cut(s)	176, 304
BsmI	GAATGC	1 cut(s)	22
BsnI	GGCC	2 cut(s)	216, 467
Bsp1286I	GDGCHC	2 cut(s)	305, 875
Bsp143I	GATC	5 cut(s)	61, 148, 295, 579, 688
Bsp19I	CCATGG	1 cut(s)	372
BspACI	CCGC	1 cut(s)	11
BspANI	GGCC	2 cut(s)	216, 467
BspCNI	CTCAG	4 cut(s)	67, 154, 391, 546
BspLI	GGNNCC	2 cut(s)	117, 769
BspMAI	CTGCAG	1 cut(s)	465
BspPI	GGATC	1 cut(s)	683
BspQI	GCTCTTC	2 cut(s)	164, 429
BsrDI	GCAATG	2 cut(s)	484, 750
BssECI	CCNNGG	3 cut(s)	372, 412, 845
BssMI	GATC	5 cut(s)	61, 148, 295, 579, 688
BssT1I	CCWWGG	2 cut(s)	372, 412
Bst2UI	CCWGG	4 cut(s)	176, 429, 635, 847
Bst4CI	ACNGT	3 cut(s)	592, 674, 933
Bst6I	CTCTTC	4 cut(s)	164, 342, 429, 621
BstAPI	GCANNNNNTGC	1 cut(s)	749
BstC8I	GCNNGC	1 cut(s)	465
BstDEI	CTNAG	5 cut(s)	54, 162, 378, 395, 554
BstDSI	CCRYGG	1 cut(s)	372
BstF5I	GGATG	1 cut(s)	319
BstKTI	GATC	5 cut(s)	64, 151, 298, 582, 691
BstMBI	GATC	5 cut(s)	61, 148, 295, 579, 688
BstMWI	GCNNNNNNNGC	2 cut(s)	17, 749
BstNI	CCWGG	4 cut(s)	176, 429, 635, 847
BstSCI	CCNGG	4 cut(s)	174, 427, 633, 845
BstSFI	CTRYAG	2 cut(s)	461, 517
BstV1I	GCAGC	6 cut(s)	85, 238, 447, 625, 736, 786
BstXI	CCANNNNNNTGG	1 cut(s)	247
BsuRI	GGCC	2 cut(s)	216, 467
BtgI	CCRYGG	1 cut(s)	372
BtsCI	GGATG	1 cut(s)	319
Cac8I	GCNNGC	1 cut(s)	465
CaiI	CAGNNNCTG	1 cut(s)	460
Cfr13I	GGNCC	2 cut(s)	115, 214
Csp6I	GTAC	1 cut(s)	891
CspCI	CAANNNNNGTGG	2 cut(s)	121, 156
CviAII	CATG	2 cut(s)	373, 772
CviQI	GTAC	1 cut(s)	891
DdeI	CTNAG	5 cut(s)	54, 162, 378, 395, 554
DpnI	GATC	5 cut(s)	63, 150, 297, 581, 690
DpnII	GATC	5 cut(s)	61, 148, 295, 579, 688
DraIII	CACNNNGTG	1 cut(s)	950
Eam1104I	CTCTTC	4 cut(s)	164, 342, 429, 621
EarI	CTCTTC	4 cut(s)	164, 342, 429, 621
Ecl136II	GAGCTC	1 cut(s)	303
Eco130I	CCWWGG	2 cut(s)	372, 412
Eco24I	GRGCYC	1 cut(s)	305
Eco47I	GGWCC	1 cut(s)	115
Eco53kI	GAGCTC	1 cut(s)	303
Eco57I	CTGAAG	2 cut(s)	188, 645
EcoICRI	GAGCTC	1 cut(s)	303
EcoRI	GAATTC	1 cut(s)	383
EcoRII	CCWGG	4 cut(s)	174, 427, 633, 845
EcoT14I	CCWWGG	2 cut(s)	372, 412
EcoT38I	GRGCYC	1 cut(s)	305
ErhI	CCWWGG	2 cut(s)	372, 412
FaeI	CATG	2 cut(s)	376, 775
FaiI	YATR	9 cut(s)	288, 335, 374, 389, 494, 519, 597, 682, 773
FaqI	GGGAC	2 cut(s)	176, 304
FatI	CATG	2 cut(s)	372, 771
FbaI	TGATCA	3 cut(s)	148, 295, 579
FblI	GTMKAC	1 cut(s)	669
Fnu4HI	GCNGC	6 cut(s)	99, 252, 461, 639, 750, 800
FokI	GGATG	1 cut(s)	326
FriOI	GRGCYC	1 cut(s)	305
Fsp4HI	GCNGC	6 cut(s)	99, 252, 461, 639, 750, 800
FspBI	CTAG	1 cut(s)	988
GluI	GCNGC	6 cut(s)	99, 252, 461, 639, 750, 800
HaeIII	GGCC	2 cut(s)	216, 467
HapII	CCGG	1 cut(s)	474
Hin1II	CATG	2 cut(s)	376, 775
HincII	GTYRAC	1 cut(s)	829
HindII	GTYRAC	1 cut(s)	829
HinfI	GANTC	6 cut(s)	44, 92, 236, 367, 757, 941
HpaI	GTTAAC	1 cut(s)	829
HpaII	CCGG	1 cut(s)	474
HphI	GGTGA	4 cut(s)	118, 155, 283, 698
Hpy166II	GTNNAC	5 cut(s)	115, 659, 670, 726, 829
Hpy188I	TCNGA	8 cut(s)	43, 57, 153, 163, 267, 300, 604, 853
Hpy188III	TCNNGA	6 cut(s)	65, 325, 380, 583, 765, 876
Hpy8I	GTNNAC	5 cut(s)	115, 659, 670, 726, 829
HpyAV	CCTTC	5 cut(s)	268, 531, 731, 813, 901
HpyCH4III	ACNGT	3 cut(s)	592, 674, 933
HpyCH4IV	ACGT	1 cut(s)	862
HpyCH4V	TGCA	7 cut(s)	20, 127, 223, 463, 743, 815, 821
HpyF10VI	GCNNNNNNNGC	2 cut(s)	17, 749
HpyF3I	CTNAG	5 cut(s)	54, 162, 378, 395, 554
HpySE526I	ACGT	1 cut(s)	862
Hsp92II	CATG	2 cut(s)	376, 775
Ksp22I	TGATCA	3 cut(s)	148, 295, 579
KspAI	GTTAAC	1 cut(s)	829
Kzo9I	GATC	5 cut(s)	61, 148, 295, 579, 688
LguI	GCTCTTC	2 cut(s)	164, 429
LmnI	GCTCC	1 cut(s)	308
Lsp1109I	GCAGC	6 cut(s)	85, 238, 447, 625, 736, 786
LweI	GCATC	1 cut(s)	210
MaeI	CTAG	1 cut(s)	988
MaeII	ACGT	1 cut(s)	862
MaeIII	GTNAC	2 cut(s)	619, 910
MalI	GATC	5 cut(s)	63, 150, 297, 581, 690
MboI	GATC	5 cut(s)	61, 148, 295, 579, 688
MboII	GAAGA	8 cut(s)	181, 359, 416, 517, 520, 638, 695, 746
MfeI	CAATTG	1 cut(s)	816
MhlI	GDGCHC	2 cut(s)	305, 875
MluCI	AATT	8 cut(s)	121, 157, 319, 383, 469, 652, 694, 816
MlyI	GAGTC	4 cut(s)	53, 86, 245, 766
MnlI	CCTC	8 cut(s)	172, 238, 321, 330, 402, 565, 579, 949
MseI	TTAA	2 cut(s)	651, 828
MspI	CCGG	1 cut(s)	474
MspR9I	CCNGG	4 cut(s)	176, 429, 635, 847
MunI	CAATTG	1 cut(s)	816
Mva1269I	GAATGC	1 cut(s)	22
MvaI	CCWGG	4 cut(s)	176, 429, 635, 847
MwoI	GCNNNNNNNGC	2 cut(s)	17, 749
NcoI	CCATGG	1 cut(s)	372
NdeII	GATC	5 cut(s)	61, 148, 295, 579, 688
NlaIII	CATG	2 cut(s)	376, 775
NlaIV	GGNNCC	2 cut(s)	117, 769
NmeAIII	GCCGAG	1 cut(s)	74
PciSI	GCTCTTC	2 cut(s)	164, 429
PctI	GAATGC	1 cut(s)	22
PfeI	GAWTC	2 cut(s)	367, 941
PflMI	CCANNNNNTGG	1 cut(s)	268
PkrI	GCNGC	6 cut(s)	100, 253, 462, 640, 751, 801
PleI	GAGTC	4 cut(s)	52, 86, 244, 765
PpsI	GAGTC	4 cut(s)	52, 86, 244, 765
PshBI	ATTAAT	1 cut(s)	651
Psp124BI	GAGCTC	1 cut(s)	305
Psp6I	CCWGG	4 cut(s)	174, 427, 633, 845
PspGI	CCWGG	4 cut(s)	174, 427, 633, 845
PspN4I	GGNNCC	2 cut(s)	117, 769
PspPI	GGNCC	2 cut(s)	115, 214
PstI	CTGCAG	1 cut(s)	465
PstNI	CAGNNNCTG	1 cut(s)	460
RsaI	GTAC	1 cut(s)	892
RsaNI	GTAC	1 cut(s)	891
SacI	GAGCTC	1 cut(s)	305
SapI	GCTCTTC	2 cut(s)	164, 429
SaqAI	TTAA	2 cut(s)	651, 828
SatI	GCNGC	6 cut(s)	99, 252, 461, 639, 750, 800
Sau3AI	GATC	5 cut(s)	61, 148, 295, 579, 688
Sau96I	GGNCC	2 cut(s)	115, 214
SchI	GAGTC	4 cut(s)	53, 86, 245, 766
ScrFI	CCNGG	4 cut(s)	176, 429, 635, 847
SduI	GDGCHC	2 cut(s)	305, 875
SfaNI	GCATC	1 cut(s)	210
SfcI	CTRYAG	2 cut(s)	461, 517
SinI	GGWCC	1 cut(s)	115
SmlI	CTYRAG	2 cut(s)	874, 915
SmoI	CTYRAG	2 cut(s)	874, 915
Sse9I	AATT	8 cut(s)	121, 157, 319, 383, 469, 652, 694, 816
SsiI	CCGC	1 cut(s)	11
SspI	AATATT	1 cut(s)	898
SspMI	CTAG	1 cut(s)	988
SstI	GAGCTC	1 cut(s)	305
StyD4I	CCNGG	4 cut(s)	174, 427, 633, 845
StyI	CCWWGG	2 cut(s)	372, 412
TaaI	ACNGT	3 cut(s)	592, 674, 933
TaiI	ACGT	1 cut(s)	865
TaqI	TCGA	4 cut(s)	30, 66, 234, 706
TasI	AATT	8 cut(s)	121, 157, 319, 383, 469, 652, 694, 816
TfiI	GAWTC	2 cut(s)	367, 941
Tru1I	TTAA	2 cut(s)	651, 828
Tru9I	TTAA	2 cut(s)	651, 828
TseI	GCWGC	6 cut(s)	98, 251, 460, 638, 749, 799
TspDTI	ATGAA	3 cut(s)	376, 747, 873
Van91I	CCANNNNNTGG	1 cut(s)	268
VpaK11BI	GGWCC	1 cut(s)	115
VspI	ATTAAT	1 cut(s)	651
XapI	RAATTY	2 cut(s)	319, 383
XcmI	CCANNNNNNNNNTGG	1 cut(s)	224
XmiI	GTMKAC	1 cut(s)	669
XspI	CTAG	1 cut(s)	988

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