Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1B

Orthogroup ID

OG0011036

Physical Location & Seq

Genomic Coordinates Reverse (-)

491094 .. 493517

Gene Structure 2424 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1BG003000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 711 bp

ATGGCGACAATCTCATCACTTTTCTCATCACCCAATCTCCTTCACCACCCCACAAAACCCATCAAAGCCTCACCGAAGCTGACCCTTCAAATCCTGAAAGCTACACCGTTTCAGGGCTCTTATCTGAAGCTGACCTCCAGAAACTCGCAGAGGCTGTATGCTGTTGCCGAAGAAGTCGCCGCCGACCCGTCTTCTAAAGCCGCCAGGAGAGTCTACATCGGCAACATTCCCAGGACTGTGGATAATGCCGAGCTTACCAAAATTGTTGAAGAACATGGTGCTGTTGAGAAGGCTGAGGTGATGTATGATAAGTACTCAGGAAGAAGTCGCCGGTTTGCATTTGTTACAGCAGAGACTGTTGAAGATGCAAATACCATAGTTGAGAAGCTGAATGGAACTGAGGTTGGAGGACGCGAGATCAAGGTAAACATAACTGAGAAACCCCTTCTACAACCAGATTTATCACTTGTCCAGGCAGAAGAGTCCCAATTTGTCGACAGCCCCCACAAAGTTTATGTTGGAAATCTTGGAAAGGGAGTAACTACAGATACACTCCAAAAGCTTTTCTCTGAAAAAGCAAAAGTTCTTAGTGCAAAGGTCTCCCGGGTTCCAGGAACCTCAAAATCTAGTGGATTTGGGTTTGTCTCTTTCTCATCAGAGGAGGATGTAGAAGCTGCCATCTCATCTTTCAACAATACTGTAAGTTTCTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001101 GO:0003674 GO:0003676 GO:0003677 GO:0003697 GO:0003723 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006950 GO:0006970 GO:0008150 GO:0009266 GO:0009409 GO:0009414 GO:0009415 GO:0009507 GO:0009526 GO:0009532 GO:0009534 GO:0009535 GO:0009536 GO:0009570 GO:0009579 GO:0009628 GO:0009651 GO:0009941 GO:0010029 GO:0010035 GO:0016020 GO:0031967 GO:0031975 GO:0031976 GO:0031984 GO:0034357 GO:0042221 GO:0042651 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044436 GO:0044444 GO:0044446 GO:0044464 GO:0047484 GO:0048519 GO:0048580 GO:0048583 GO:0048585 GO:0050789 GO:0050793 GO:0050896 GO:0051239 GO:0055035 GO:0065007 GO:0080134 GO:0080148 GO:0097159 GO:1900140 GO:1901000 GO:1901001 GO:1901363 GO:1901700 GO:2000026 GO:2000070

KEGG Pathways

Metabolic & Signaling

ko03013 ko03015 ko03018 map03013 map03015 map03018

Pfam Domains

Protein Families

RRM_1

Protein Analysis

236

Amino Acids

25.7

Weight (kDa)

8.63

Isoelectric Point (pI)

45.06

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	71 - 141	6.7e-17	RNA recognition motif
RRM_1	PF00076	171 - 233	4.3e-16	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)

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Publication-ready

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Orthologous Genes (Group: OG0011036)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G52150 AT3G52150
fragaria_vesca	FvH4_7g00530 FvH4_7g00530
malus_domestica	MD02G1316800.v1.1 MD07G1005200.v1.1
prunus_persica	Prupe.2G007400_v2.0.a1
pyrus_communis	pycom02g26550 pycom07g00420
rosa_chinensis	RchiOBHm_Chr1g0314321
rosa_laevigata	RLG00000030766
rosa_multiflora	Rmu_sc0000343.1_g000012 Rmu_sc0002833.1_g000006
rosa_roxburghii	Rroxscaffold_4G00331960
rosa_rugosa	Rorug01G0001000
rosa_samantha	Rh1AG010100 Rh1BG003000 Rh1CG010400 Rh1DG005500
rosa_wichuraiana	Rw1G000460

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	2 cut(s)	213, 495
AccII	CGCG	1 cut(s)	414
AciI	CCGC	2 cut(s)	180, 201
AcuI	CTGAAG	1 cut(s)	146
AfaI	GTAC	1 cut(s)	314
AfiI	CCNNNNNNNGG	1 cut(s)	113
AgsI	TTSAA	4 cut(s)	89, 269, 362, 691
AjnI	CCWGG	4 cut(s)	203, 230, 471, 610
AluBI	AGCT	7 cut(s)	79, 101, 130, 253, 388, 562, 674
AluI	AGCT	7 cut(s)	79, 101, 130, 253, 388, 562, 674
Alw26I	GTCTC	3 cut(s)	347, 604, 649
AlwNI	CAGNNNCTG	2 cut(s)	154, 356
Ama87I	CYCGRG	1 cut(s)	603
ApeKI	GCWGC	1 cut(s)	674
AsuC2I	CCSGG	2 cut(s)	604, 605
AsuHPI	GGTGA	4 cut(s)	21, 35, 63, 310
AvaI	CYCGRG	1 cut(s)	603
BanII	GRGCYC	1 cut(s)	119
BbsI	GAAGAC	1 cut(s)	183
BbvCI	CCTCAGC	1 cut(s)	294
BbvI	GCAGC	1 cut(s)	661
BccI	CCATC	2 cut(s)	68, 686
BciT130I	CCWGG	4 cut(s)	205, 232, 473, 612
BcnI	CCSGG	2 cut(s)	604, 605
BcoDI	GTCTC	3 cut(s)	347, 604, 649
BfaI	CTAG	2 cut(s)	627, 709
BfmI	CTRYAG	1 cut(s)	543
BisI	GCNGC	3 cut(s)	180, 201, 675
BlsI	GCNGC	3 cut(s)	181, 202, 676
BmcAI	AGTACT	1 cut(s)	314
Bme1390I	CCNGG	6 cut(s)	205, 232, 473, 604, 605, 612
BmeT110I	CYCGRG	1 cut(s)	603
BmiI	GGNNCC	2 cut(s)	609, 616
BmrFI	CCNGG	6 cut(s)	205, 232, 473, 604, 605, 612
BmsI	GCATC	1 cut(s)	355
BpiI	GAAGAC	1 cut(s)	183
BpmI	CTGGAG	1 cut(s)	121
Bpu10I	CCTNAGC	1 cut(s)	294
BpuMI	CCSGG	2 cut(s)	604, 605
BsaI	GGTCTC	1 cut(s)	604
BsaJI	CCNNGG	2 cut(s)	230, 603
BsaXI	ACNNNNNCTCC	2 cut(s)	21, 51
Bsc4I	CCNNNNNNNGG	1 cut(s)	113
Bse118I	RCCGGY	1 cut(s)	330
BseBI	CCWGG	4 cut(s)	205, 232, 473, 612
BseDI	CCNNGG	2 cut(s)	230, 603
BseGI	GGATG	1 cut(s)	670
BseLI	CCNNNNNNNGG	1 cut(s)	113
BseMII	CTCAG	4 cut(s)	285, 330, 390, 426
BseRI	GAGGAG	1 cut(s)	674
BseXI	GCAGC	1 cut(s)	661
Bsh1236I	CGCG	1 cut(s)	414
BsiHKCI	CYCGRG	1 cut(s)	603
BsiSI	CCGG	2 cut(s)	331, 604
BslFI	GGGAC	1 cut(s)	469
BslI	CCNNNNNNNGG	1 cut(s)	113
BsmAI	GTCTC	3 cut(s)	347, 604, 649
BsmFI	GGGAC	1 cut(s)	469
Bso31I	GGTCTC	1 cut(s)	604
BsoBI	CYCGRG	1 cut(s)	603
Bsp1286I	GDGCHC	1 cut(s)	119
Bsp143I	GATC	1 cut(s)	417
BspACI	CCGC	2 cut(s)	180, 201
BspCNI	CTCAG	4 cut(s)	286, 329, 391, 427
BspFNI	CGCG	1 cut(s)	414
BspLI	GGNNCC	2 cut(s)	609, 616
BspTNI	GGTCTC	1 cut(s)	604
BsrFI	RCCGGY	1 cut(s)	330
BssAI	RCCGGY	1 cut(s)	330
BssECI	CCNNGG	2 cut(s)	230, 603
BssMI	GATC	1 cut(s)	417
Bst2UI	CCWGG	4 cut(s)	205, 232, 473, 612
Bst4CI	ACNGT	4 cut(s)	108, 238, 358, 700
Bst6I	CTCTTC	1 cut(s)	474
BstDEI	CTNAG	5 cut(s)	294, 316, 399, 435, 587
BstF5I	GGATG	1 cut(s)	670
BstFNI	CGCG	1 cut(s)	414
BstKTI	GATC	1 cut(s)	420
BstMAI	GTCTC	3 cut(s)	347, 604, 649
BstMBI	GATC	1 cut(s)	417
BstNI	CCWGG	4 cut(s)	205, 232, 473, 612
BstSCI	CCNGG	6 cut(s)	203, 230, 471, 602, 603, 610
BstSFI	CTRYAG	1 cut(s)	543
BstUI	CGCG	1 cut(s)	414
BstV1I	GCAGC	1 cut(s)	661
BstV2I	GAAGAC	1 cut(s)	183
BstXI	CCANNNNNNTGG	1 cut(s)	238
BtsCI	GGATG	1 cut(s)	670
CaiI	CAGNNNCTG	2 cut(s)	154, 356
Cfr10I	RCCGGY	1 cut(s)	330
Cfr9I	CCCGGG	1 cut(s)	603
CseI	GACGC	1 cut(s)	420
Csp6I	GTAC	1 cut(s)	313
CviAII	CATG	1 cut(s)	275
CviQI	GTAC	1 cut(s)	313
DdeI	CTNAG	5 cut(s)	294, 316, 399, 435, 587
DpnI	GATC	1 cut(s)	419
DpnII	GATC	1 cut(s)	417
Eam1104I	CTCTTC	1 cut(s)	474
EarI	CTCTTC	1 cut(s)	474
Eco24I	GRGCYC	1 cut(s)	119
Eco31I	GGTCTC	1 cut(s)	604
Eco57I	CTGAAG	1 cut(s)	146
Eco88I	CYCGRG	1 cut(s)	603
EcoRII	CCWGG	4 cut(s)	203, 230, 471, 610
EcoT38I	GRGCYC	1 cut(s)	119
FaeI	CATG	1 cut(s)	278
FaiI	YATR	6 cut(s)	159, 276, 306, 377, 431, 516
FaqI	GGGAC	1 cut(s)	469
FatI	CATG	1 cut(s)	274
FblI	GTMKAC	2 cut(s)	213, 495
Fnu4HI	GCNGC	3 cut(s)	180, 201, 675
FokI	GGATG	1 cut(s)	677
FriOI	GRGCYC	1 cut(s)	119
Fsp4HI	GCNGC	3 cut(s)	180, 201, 675
FspBI	CTAG	2 cut(s)	627, 709
GluI	GCNGC	3 cut(s)	180, 201, 675
GsuI	CTGGAG	1 cut(s)	121
HapII	CCGG	2 cut(s)	331, 604
HgaI	GACGC	1 cut(s)	420
Hin1II	CATG	1 cut(s)	278
HincII	GTYRAC	1 cut(s)	496
HindII	GTYRAC	1 cut(s)	496
HindIII	AAGCTT	1 cut(s)	560
HinfI	GANTC	2 cut(s)	210, 482
HpaII	CCGG	2 cut(s)	331, 604
HphI	GGTGA	4 cut(s)	21, 35, 63, 310
Hpy166II	GTNNAC	3 cut(s)	214, 427, 496
Hpy188I	TCNGA	3 cut(s)	126, 571, 658
Hpy188III	TCNNGA	3 cut(s)	94, 138, 318
Hpy8I	GTNNAC	3 cut(s)	214, 427, 496
HpyAV	CCTTC	4 cut(s)	50, 95, 283, 455
HpyCH4III	ACNGT	4 cut(s)	108, 238, 358, 700
HpyCH4V	TGCA	3 cut(s)	338, 368, 593
HpyF3I	CTNAG	5 cut(s)	294, 316, 399, 435, 587
Hsp92II	CATG	1 cut(s)	278
Kzo9I	GATC	1 cut(s)	417
Lsp1109I	GCAGC	1 cut(s)	661
LweI	GCATC	1 cut(s)	355
MaeI	CTAG	2 cut(s)	627, 709
MaeIII	GTNAC	2 cut(s)	343, 538
MalI	GATC	1 cut(s)	419
MboI	GATC	1 cut(s)	417
MboII	GAAGA	6 cut(s)	182, 183, 281, 333, 374, 491
MhlI	GDGCHC	1 cut(s)	119
MluCI	AATT	2 cut(s)	261, 488
MlyI	GAGTC	2 cut(s)	219, 491
MmeI	TCCRAC	2 cut(s)	385, 499
MnlI	CCTC	9 cut(s)	79, 144, 145, 289, 394, 401, 628, 652, 655
MspI	CCGG	2 cut(s)	331, 604
MspR9I	CCNGG	6 cut(s)	205, 232, 473, 604, 605, 612
MvaI	CCWGG	4 cut(s)	205, 232, 473, 612
MvnI	CGCG	1 cut(s)	414
NciI	CCSGG	2 cut(s)	604, 605
NdeII	GATC	1 cut(s)	417
NlaIII	CATG	1 cut(s)	278
NlaIV	GGNNCC	2 cut(s)	609, 616
NmeAIII	GCCGAG	1 cut(s)	274
PfoI	TCCNGGA	1 cut(s)	610
PkrI	GCNGC	3 cut(s)	181, 202, 676
PleI	GAGTC	2 cut(s)	218, 490
PpsI	GAGTC	2 cut(s)	218, 490
Psp6I	CCWGG	4 cut(s)	203, 230, 471, 610
PspGI	CCWGG	4 cut(s)	203, 230, 471, 610
PspN4I	GGNNCC	2 cut(s)	609, 616
PstNI	CAGNNNCTG	2 cut(s)	154, 356
RsaI	GTAC	1 cut(s)	314
RsaNI	GTAC	1 cut(s)	313
SalI	GTCGAC	1 cut(s)	494
SatI	GCNGC	3 cut(s)	180, 201, 675
Sau3AI	GATC	1 cut(s)	417
ScaI	AGTACT	1 cut(s)	314
SchI	GAGTC	2 cut(s)	219, 491
ScrFI	CCNGG	6 cut(s)	205, 232, 473, 604, 605, 612
SduI	GDGCHC	1 cut(s)	119
SfaNI	GCATC	1 cut(s)	355
SfcI	CTRYAG	1 cut(s)	543
SmaI	CCCGGG	1 cut(s)	605
Sse9I	AATT	2 cut(s)	261, 488
SsiI	CCGC	2 cut(s)	180, 201
SspMI	CTAG	2 cut(s)	627, 709
StyD4I	CCNGG	6 cut(s)	203, 230, 471, 602, 603, 610
TaaI	ACNGT	4 cut(s)	108, 238, 358, 700
TaqI	TCGA	1 cut(s)	495
TasI	AATT	2 cut(s)	261, 488
TatI	WGTACW	1 cut(s)	312
TauI	GCSGC	2 cut(s)	182, 203
TseI	GCWGC	1 cut(s)	674
TspMI	CCCGGG	1 cut(s)	603
XmaI	CCCGGG	1 cut(s)	603
XmiI	GTMKAC	2 cut(s)	213, 495
XspI	CTAG	2 cut(s)	627, 709
ZrmI	AGTACT	1 cut(s)	314

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