Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0000611

Physical Location & Seq

Genomic Coordinates Reverse (-)

52270450 .. 52271184

Gene Structure 735 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG300900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 735 bp

ATGGACTTCACAAAGAAGCGGAAGACGGACGAGAACGGCGACGTTTCGACTGCCCCGCCTTCCCAATTAACAACCCTAACCCCCGACGACTTCCGCAAACTCCTCCAGCCCATGTCCCACGACCACCTCGTCGAAATCCTCGAAAACGCCGTCGTTCGCCACCCCGACGTCCTCGAATCCCTCCGCCACGTCACCAACCGTCACCTCACCCTCCGCAAGCTCTTCGTCCGTGGCCTCGGCGGCGACACCACCACCGATTCGCTCCGCTCCGTCTTCTCCGCCTTCGGCGACCTCGACGAGGCGATCGTCATCTTCGACAAGGCCACCGGAAAATCCAAGGGCTACGGATTCGTCACCTTCAAGCACGCCGACGAAGCCCTAATTGCGCTCAAGGAACCGAGCAAGAAGATCGACGGCAGAGTCACCGTCACGCAGTACGCCGCCGCCGGACATTCGGCGCCGTTCAGTACCAGCAACGGCGGCGCCGATGTCTCGGCGAGGAAGATTTACGTCGGGACGGTGCCGTTTGATATCTCCTCGGAGAGATTGTTGTCTGCGTTTTCGGCTTTCGGAGAGATTGAAGAAGGTCCTCTAGGGTTTGATGAGGCCACCGGAAAATCAAAGGGCTTTGCATTCTTAGTGTACAAGACCGAAGAAGGTGCCAGGGCCGCTCTCATTGAGCCTTTGAAAAACATTGATGGTCATCATGTGACTTGGCAAATTAGCTGTGGATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

ko03040 map03040

Pfam Domains

Protein Families

RRM_1

Protein Analysis

244

Amino Acids

26.57

Weight (kDa)

6.14

Isoelectric Point (pI)

33.83

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	74 - 141	5.4e-15	RNA recognition motif
RRM_7	PF16367	167 - 226	6.6e-07	RNA recognition motif
RRM_1	PF00076	169 - 226	1.1e-11	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: OG0000611)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G15010 AT3G15010
fragaria_vesca	FvH4_3g07890 FvH4_3g18630 FvH4_6g22550 FvH4_6g22550 FvH4_6g22550 FvH4_6g22550
malus_domestica	MD03G1240500.v1.1 MD10G1280800.v1.1 MD11G1259900.v1.1 MD12G1058300.v1.1
prunus_persica	Prupe.4G060300_v2.0.a1 Prupe.4G170100_v2.0.a1 Prupe.7G075100_v2.0.a1 Prupe.7G075100_v2.0.a1 Prupe.7G075100_v2.0.a1 Prupe.7G075100_v2.0.a1 Prupe.7G075100_v2.0.a1 Prupe.7G075100_v2.0.a1
pyrus_communis	pycom12g05260
rosa_chinensis	RchiOBHm_Chr1g0364191 RchiOBHm_Chr3g0480051 RchiOBHm_Chr5g0010701 RchiOBHm_Chr5g0031451
rosa_laevigata	RLG00000023519 RLG00000031772 RLG00000033308
rosa_multiflora	Rmu_co8296297.1_g000001 Rmu_sc0003684.1_g000004 Rmu_sc0006604.1_g000017 Rmu_sc0008864.1_g000013 Rmu_sc0013975.1_g000001 Rmu_sc0021762.1_g000001
rosa_roxburghii	Rroxscaffold_1G00005170 Rroxscaffold_1G00065690 Rroxscaffold_6G00401800
rosa_rugosa	Rorug03G0180200 Rorug03G0180300 Rorug03G0180400 Rorug03G0180500 Rorug04G0451600 Rorug04G0451700 Rorug05G0125900
rosa_samantha	Rh1AG051900 Rh1AG321800 Rh1CG005400 Rh1CG301300 Rh1DG000800 Rh3AG231300 Rh3BG263700 Rh3CG261200 Rh3DG257100 Rh3DG316100 Rh4AG036900 Rh4AG037000 Rh4BG212900 Rh4BG213000 Rh4CG196500 Rh4DG300800 Rh4DG300900 Rh4DG301000 Rh5AG083400 Rh5AG218600 Rh5BG078600 Rh5BG218000 Rh5CG091400 Rh5CG241600 Rh5DG078800 Rh5DG223200 Rh7BG406600 Rh7DG422300
rosa_wichuraiana	Rw0G000640 Rw0G022340 Rw1G003330 Rw3G020470 Rw3G020800 Rw5G019360 Rw5G019950

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	2 cut(s)	128, 419
AatII	GACGTC	1 cut(s)	171
AccB1I	GGYRCC	4 cut(s)	457, 482, 520, 659
AccBSI	CCGCTC	2 cut(s)	267, 671
AcyI	GRCGYC	3 cut(s)	168, 458, 483
AfaI	GTAC	3 cut(s)	437, 469, 644
AfiI	CCNNNNNNNGG	1 cut(s)	298
AgsI	TTSAA	3 cut(s)	361, 581, 688
AjiI	CACGTC	1 cut(s)	190
AjnI	CCWGG	1 cut(s)	662
AluBI	AGCT	2 cut(s)	220, 726
AluI	AGCT	2 cut(s)	220, 726
Alw26I	GTCTC	1 cut(s)	496
AoxI	GGCC	4 cut(s)	232, 321, 606, 666
ArsI	GACNNNNNNTTYG	2 cut(s)	135, 167
AspLEI	GCGC	3 cut(s)	388, 460, 485
AspS9I	GGNCC	2 cut(s)	587, 666
AsuHPI	GGTGA	5 cut(s)	184, 194, 199, 346, 415
AvaII	GGWCC	1 cut(s)	587
BanI	GGYRCC	4 cut(s)	457, 482, 520, 659
BbsI	GAAGAC	2 cut(s)	29, 265
BccI	CCATC	1 cut(s)	692
BceAI	ACGGC	6 cut(s)	52, 134, 430, 445, 493, 508
BcgI	CGANNNNNNTGC	6 cut(s)	205, 239, 391, 425, 641, 675
BciT130I	CCWGG	1 cut(s)	664
BcoDI	GTCTC	1 cut(s)	496
BfaI	CTAG	1 cut(s)	593
BfoI	RGCGCY	2 cut(s)	461, 486
BglI	GCCNNNNNGGC	1 cut(s)	240
BisI	GCNGC	5 cut(s)	241, 441, 444, 481, 669
BlsI	GCNGC	5 cut(s)	242, 442, 445, 482, 670
Bme1390I	CCNGG	1 cut(s)	664
Bme18I	GGWCC	1 cut(s)	587
BmgBI	CACGTC	1 cut(s)	190
BmgT120I	GGNCC	2 cut(s)	587, 666
BmiI	GGNNCC	5 cut(s)	396, 459, 484, 522, 661
BmrFI	CCNGG	1 cut(s)	664
BpiI	GAAGAC	2 cut(s)	29, 265
BpmI	CTGGAG	1 cut(s)	89
BpuEI	CTTGAG	1 cut(s)	374
BsaBI	GATNNNNATC	2 cut(s)	308, 702
BsaHI	GRCGYC	3 cut(s)	168, 458, 483
BsaJI	CCNNGG	5 cut(s)	229, 235, 336, 537, 663
BsaWI	WCCGGW	2 cut(s)	326, 611
BsaXI	ACNNNNNCTCC	2 cut(s)	533, 563
Bsc4I	CCNNNNNNNGG	1 cut(s)	298
Bse8I	GATNNNNATC	2 cut(s)	308, 702
BseBI	CCWGG	1 cut(s)	664
BseDI	CCNNGG	5 cut(s)	229, 235, 336, 537, 663
BseJI	GATNNNNATC	2 cut(s)	308, 702
BseLI	CCNNNNNNNGG	1 cut(s)	298
BseRI	GAGGAG	2 cut(s)	92, 526
Bsh1285I	CGRYCG	1 cut(s)	306
BshFI	GGCC	4 cut(s)	234, 323, 608, 668
BshNI	GGYRCC	4 cut(s)	457, 482, 520, 659
BsiEI	CGRYCG	1 cut(s)	306
BsiSI	CCGG	3 cut(s)	327, 447, 612
BslFI	GGGAC	2 cut(s)	100, 529
BslI	CCNNNNNNNGG	1 cut(s)	298
BsmAI	GTCTC	1 cut(s)	496
BsmFI	GGGAC	2 cut(s)	100, 529
BsmI	GAATGC	1 cut(s)	632
BsnI	GGCC	4 cut(s)	234, 323, 608, 668
Bsp1407I	TGTACA	1 cut(s)	642
Bsp143I	GATC	2 cut(s)	303, 408
BspANI	GGCC	4 cut(s)	234, 323, 608, 668
BspLI	GGNNCC	5 cut(s)	396, 459, 484, 522, 661
BspQI	GCTCTTC	1 cut(s)	227
BspT107I	GGYRCC	4 cut(s)	457, 482, 520, 659
BsrBI	CCGCTC	2 cut(s)	267, 671
BsrGI	TGTACA	1 cut(s)	642
BssECI	CCNNGG	5 cut(s)	229, 235, 336, 537, 663
BssMI	GATC	2 cut(s)	303, 408
BssNI	GRCGYC	3 cut(s)	168, 458, 483
BssT1I	CCWWGG	1 cut(s)	336
Bst2UI	CCWGG	1 cut(s)	664
Bst4CI	ACNGT	3 cut(s)	200, 427, 520
Bst6I	CTCTTC	1 cut(s)	227
BstACI	GRCGYC	3 cut(s)	168, 458, 483
BstAUI	TGTACA	1 cut(s)	642
BstC8I	GCNNGC	2 cut(s)	218, 366
BstDEI	CTNAG	1 cut(s)	637
BstDSI	CCRYGG	1 cut(s)	229
BstENI	CCTNNNNNAGG	1 cut(s)	296
BstH2I	RGCGCY	2 cut(s)	461, 486
BstHHI	GCGC	3 cut(s)	388, 460, 485
BstKTI	GATC	2 cut(s)	306, 411
BstMAI	GTCTC	1 cut(s)	496
BstMBI	GATC	2 cut(s)	303, 408
BstMCI	CGRYCG	1 cut(s)	306
BstMWI	GCNNNNNNNGC	6 cut(s)	240, 374, 383, 480, 563, 668
BstNI	CCWGG	1 cut(s)	664
BstSCI	CCNGG	1 cut(s)	662
BstV2I	GAAGAC	2 cut(s)	29, 265
BsuRI	GGCC	4 cut(s)	234, 323, 608, 668
BtgI	CCRYGG	1 cut(s)	229
BtrI	CACGTC	1 cut(s)	190
Cac8I	GCNNGC	2 cut(s)	218, 366
CfoI	GCGC	3 cut(s)	388, 460, 485
Cfr13I	GGNCC	2 cut(s)	587, 666
Csp6I	GTAC	3 cut(s)	436, 468, 643
CviAII	CATG	2 cut(s)	112, 707
CviQI	GTAC	3 cut(s)	436, 468, 643
DdeI	CTNAG	1 cut(s)	637
DinI	GGCGCC	2 cut(s)	459, 484
DpnI	GATC	2 cut(s)	305, 410
DpnII	GATC	2 cut(s)	303, 408
DrdI	GACNNNNNNGTC	2 cut(s)	128, 419
DseDI	GACNNNNNNGTC	2 cut(s)	128, 419
Eam1104I	CTCTTC	1 cut(s)	227
EarI	CTCTTC	1 cut(s)	227
EciI	GGCGGA	2 cut(s)	173, 268
Eco130I	CCWWGG	1 cut(s)	336
Eco32I	GATATC	1 cut(s)	532
Eco47I	GGWCC	1 cut(s)	587
EcoNI	CCTNNNNNAGG	1 cut(s)	296
EcoO109I	RGGNCCY	1 cut(s)	587
EcoRII	CCWGG	1 cut(s)	662
EcoRV	GATATC	1 cut(s)	532
EcoT14I	CCWWGG	1 cut(s)	336
EgeI	GGCGCC	2 cut(s)	459, 484
EheI	GGCGCC	2 cut(s)	459, 484
ErhI	CCWWGG	1 cut(s)	336
FaeI	CATG	2 cut(s)	115, 710
FaiI	YATR	2 cut(s)	113, 708
FaqI	GGGAC	2 cut(s)	100, 529
FatI	CATG	2 cut(s)	111, 706
FauI	CCCGC	1 cut(s)	63
Fnu4HI	GCNGC	5 cut(s)	241, 441, 444, 481, 669
Fsp4HI	GCNGC	5 cut(s)	241, 441, 444, 481, 669
FspBI	CTAG	1 cut(s)	593
GlaI	GCGC	3 cut(s)	387, 459, 484
GluI	GCNGC	5 cut(s)	241, 441, 444, 481, 669
GsuI	CTGGAG	1 cut(s)	89
HaeII	RGCGCY	2 cut(s)	461, 486
HaeIII	GGCC	4 cut(s)	234, 323, 608, 668
HapII	CCGG	3 cut(s)	327, 447, 612
HhaI	GCGC	3 cut(s)	388, 460, 485
Hin1I	GRCGYC	3 cut(s)	168, 458, 483
Hin1II	CATG	2 cut(s)	115, 710
Hin6I	GCGC	3 cut(s)	386, 458, 483
HinP1I	GCGC	3 cut(s)	386, 458, 483
HinfI	GANTC	4 cut(s)	176, 257, 348, 420
HpaII	CCGG	3 cut(s)	327, 447, 612
HphI	GGTGA	5 cut(s)	184, 194, 199, 346, 415
Hpy166II	GTNNAC	1 cut(s)	643
Hpy188I	TCNGA	2 cut(s)	541, 572
Hpy188III	TCNNGA	1 cut(s)	514
Hpy8I	GTNNAC	1 cut(s)	643
Hpy99I	CGWCG	9 cut(s)	44, 89, 134, 155, 170, 299, 374, 416, 515
HpyAV	CCTTC	5 cut(s)	69, 292, 367, 578, 650
HpyCH4III	ACNGT	3 cut(s)	200, 427, 520
HpyCH4IV	ACGT	4 cut(s)	42, 168, 189, 510
HpyCH4V	TGCA	1 cut(s)	632
HpyF10VI	GCNNNNNNNGC	6 cut(s)	240, 374, 383, 480, 563, 668
HpyF3I	CTNAG	1 cut(s)	637
HpySE526I	ACGT	4 cut(s)	42, 168, 189, 510
Hsp92I	GRCGYC	3 cut(s)	168, 458, 483
Hsp92II	CATG	2 cut(s)	115, 710
HspAI	GCGC	3 cut(s)	386, 458, 483
KasI	GGCGCC	2 cut(s)	457, 482
Kzo9I	GATC	2 cut(s)	303, 408
LguI	GCTCTTC	1 cut(s)	227
LmnI	GCTCC	2 cut(s)	267, 272
LpnPI	CCDG	7 cut(s)	119, 340, 460, 484, 625, 649, 676
MaeI	CTAG	1 cut(s)	593
MaeII	ACGT	4 cut(s)	42, 168, 189, 510
MaeIII	GTNAC	6 cut(s)	190, 200, 352, 421, 427, 709
MalI	GATC	2 cut(s)	305, 410
MbiI	CCGCTC	2 cut(s)	267, 671
MboI	GATC	2 cut(s)	303, 408
MboII	GAAGA	8 cut(s)	34, 214, 265, 304, 418, 514, 593, 665
MluCI	AATT	3 cut(s)	65, 381, 720
Mly113I	GGCGCC	2 cut(s)	458, 483
MlyI	GAGTC	1 cut(s)	429
MseI	TTAA	1 cut(s)	68
MspI	CCGG	3 cut(s)	327, 447, 612
MspR9I	CCNGG	1 cut(s)	664
Mva1269I	GAATGC	1 cut(s)	632
MvaI	CCWGG	1 cut(s)	664
MwoI	GCNNNNNNNGC	6 cut(s)	240, 374, 383, 480, 563, 668
NarI	GGCGCC	2 cut(s)	458, 483
NdeII	GATC	2 cut(s)	303, 408
NlaIII	CATG	2 cut(s)	115, 710
NlaIV	GGNNCC	5 cut(s)	396, 459, 484, 522, 661
NmeAIII	GCCGAG	2 cut(s)	216, 473
NmuCI	GTSAC	6 cut(s)	190, 200, 352, 421, 427, 709
PciSI	GCTCTTC	1 cut(s)	227
PcsI	WCGNNNNNNNCGW	8 cut(s)	36, 126, 138, 147, 291, 303, 312, 483
PctI	GAATGC	1 cut(s)	632
PfeI	GAWTC	3 cut(s)	176, 257, 348
PkrI	GCNGC	5 cut(s)	242, 442, 445, 482, 670
Ple19I	CGATCG	1 cut(s)	306
PleI	GAGTC	1 cut(s)	428
PluTI	GGCGCC	2 cut(s)	461, 486
PpsI	GAGTC	1 cut(s)	428
PpuMI	RGGWCCY	1 cut(s)	587
Psp5II	RGGWCCY	1 cut(s)	587
Psp6I	CCWGG	1 cut(s)	662
PspGI	CCWGG	1 cut(s)	662
PspN4I	GGNNCC	5 cut(s)	396, 459, 484, 522, 661
PspPI	GGNCC	2 cut(s)	587, 666
PspPPI	RGGWCCY	1 cut(s)	587
PvuI	CGATCG	1 cut(s)	306
RsaI	GTAC	3 cut(s)	437, 469, 644
RsaNI	GTAC	3 cut(s)	436, 468, 643
SapI	GCTCTTC	1 cut(s)	227
SaqAI	TTAA	1 cut(s)	68
SatI	GCNGC	5 cut(s)	241, 441, 444, 481, 669
Sau3AI	GATC	2 cut(s)	303, 408
Sau96I	GGNCC	2 cut(s)	587, 666
SchI	GAGTC	1 cut(s)	429
ScrFI	CCNGG	1 cut(s)	664
SfoI	GGCGCC	2 cut(s)	459, 484
SinI	GGWCC	1 cut(s)	587
SmlI	CTYRAG	1 cut(s)	389
SmoI	CTYRAG	1 cut(s)	389
Sse9I	AATT	3 cut(s)	65, 381, 720
SspDI	GGCGCC	2 cut(s)	457, 482
SspMI	CTAG	1 cut(s)	593
StyD4I	CCNGG	1 cut(s)	662
StyI	CCWWGG	1 cut(s)	336
TaaI	ACNGT	3 cut(s)	200, 427, 520
TaiI	ACGT	4 cut(s)	45, 171, 192, 513
TaqI	TCGA	7 cut(s)	47, 132, 141, 174, 294, 315, 411
TaqII	GACCGA	1 cut(s)	665
TasI	AATT	3 cut(s)	65, 381, 720
TatI	WGTACW	1 cut(s)	642
TauI	GCSGC	5 cut(s)	243, 443, 446, 483, 671
TfiI	GAWTC	3 cut(s)	176, 257, 348
Tru1I	TTAA	1 cut(s)	68
Tru9I	TTAA	1 cut(s)	68
TseFI	GTSAC	6 cut(s)	190, 200, 352, 421, 427, 709
Tsp45I	GTSAC	6 cut(s)	190, 200, 352, 421, 427, 709
TspGWI	ACGGA	4 cut(s)	41, 218, 259, 360
VpaK11BI	GGWCC	1 cut(s)	587
XagI	CCTNNNNNAGG	1 cut(s)	296
XspI	CTAG	1 cut(s)	593
ZraI	GACGTC	1 cut(s)	169

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