Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3A

Orthogroup ID

OG0008854

Physical Location & Seq

Genomic Coordinates Reverse (-)

25543587 .. 25546118

Gene Structure 2532 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3AG242800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 699 bp

ATGAGTTTAAATGATGAGTCCCAATTTATATCTGTGGAGGAAAGAGGAGAAGATGCTACAACAAATGTACAAGGAGATGATTTGCCTTCTAGAAGAAATCGGACGAGAGGTTTTACAGTTAAGAAGAGGAAGAAGAGTTCTCAATGTTGGCTGTCTTTTGAGGAAATTCCTTTGGGTGAGGATATGATTGAGCGTGCAAAATGCAAGAAATGTGGAGCAATACTCAAATGTGATTCGGCAACAGGGACAGCTAGTGCCGATATCTCTCTCCCTCCCTCCCTCCCTCCCTTCCTACTGACCTCCGGCTCCGGCGCACGAGCCAGGGCGTCTCCAGCTCCGGCGCACGAGCTCCGGCGCTCGACCCAGGCAGTCTACCTCTCTCCTCCAGACTCGGGCCGCCCACCACAGCGTCGTCACCAGAGGAATCGACCTCGACGACTCGGTCCAGATCGGAGTCGACCTCGACGACTGGCTGGTCCTAATCCAGATCGGAAGAATGCTGAACCTGAAGGAAGTGAATCGGAGATTGGGGATGTTGACCAGGCTCCTTCACCTCCTCCAGCCACCACTTCTCCGCAGATCACAGAGCCGAATTCGAAGTCGACGACTTCTCTGCCAACGATGACGGCGGTTCCACTCCCAAATCCTCTTCCGCCGCGGCGATTCATCGAACACCTCGAGCTACAGGTCCACCGGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DUF4413 Dimer_Tnp_hAT

Protein Analysis

232

Amino Acids

25.51

Weight (kDa)

9.68

Isoelectric Point (pI)

81.9

Instability Index

Protein Domains (Pfam)

No Pfam domains detected for this protein.

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: OG0008854)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_3g25820 FvH4_4g23501
malus_domestica	MD08G1103000.v1.1
rosa_chinensis	RchiOBHm_Chr4g0413291
rosa_laevigata	RLG00000004394 RLG00000007028 RLG00000007034 RLG00000016156 RLG00000021265 RLG00000025261 RLG00000036133 RLG00000036951
rosa_multiflora	Rmu_co7995666.1_g000001 Rmu_sc0007362.1_g000024 Rmu_sc0007961.1_g000009
rosa_roxburghii	Rroxscaffold_1G00010760
rosa_samantha	Rh3AG242800 Rh4BG023000 Rh4DG049800 Rh4DG298800 Rh7AG129200 Rh7BG462200
rosa_wichuraiana	Rw4G025560

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	2 cut(s)	441, 474
AccI	GTMKAC	3 cut(s)	372, 457, 602
AccII	CGCG	1 cut(s)	658
AciI	CCGC	6 cut(s)	397, 575, 629, 653, 656, 658
AcsI	RAATTY	2 cut(s)	165, 592
AcuI	CTGAAG	1 cut(s)	528
AcyI	GRCGYC	1 cut(s)	326
AfaI	GTAC	1 cut(s)	69
AfiI	CCNNNNNNNGG	1 cut(s)	392
AgeI	ACCGGT	1 cut(s)	693
AjnI	CCWGG	3 cut(s)	320, 363, 540
AjuI	GAANNNNNNNTTGG	2 cut(s)	510, 542
AloI	GAACNNNNNNTCC	2 cut(s)	121, 153
AluBI	AGCT	4 cut(s)	251, 335, 349, 682
AluI	AGCT	4 cut(s)	251, 335, 349, 682
Alw21I	GWGCWC	1 cut(s)	351
Alw26I	GTCTC	1 cut(s)	333
Ama87I	CYCGRG	2 cut(s)	391, 677
AoxI	GGCC	1 cut(s)	394
ApoI	RAATTY	2 cut(s)	165, 592
ArsI	GACNNNNNNTTYG	2 cut(s)	584, 616
AsiGI	ACCGGT	1 cut(s)	693
AspLEI	GCGC	3 cut(s)	314, 343, 357
AspS9I	GGNCC	4 cut(s)	394, 443, 476, 688
AsuHPI	GGTGA	3 cut(s)	188, 407, 543
AsuII	TTCGAA	1 cut(s)	596
AvaI	CYCGRG	2 cut(s)	391, 677
AvaII	GGWCC	3 cut(s)	443, 476, 688
BanII	GRGCYC	1 cut(s)	351
BauI	CACGAG	2 cut(s)	315, 344
Bbv12I	GWGCWC	1 cut(s)	351
BceAI	ACGGC	1 cut(s)	642
BcgI	CGANNNNNNTGC	2 cut(s)	595, 629
BciT130I	CCWGG	3 cut(s)	322, 365, 542
BcoDI	GTCTC	1 cut(s)	333
BfaI	CTAG	2 cut(s)	90, 252
BfmI	CTRYAG	1 cut(s)	683
BfoI	RGCGCY	1 cut(s)	358
BisI	GCNGC	3 cut(s)	397, 656, 659
BlsI	GCNGC	3 cut(s)	398, 657, 660
Bme1390I	CCNGG	3 cut(s)	322, 365, 542
Bme18I	GGWCC	3 cut(s)	443, 476, 688
BmeT110I	CYCGRG	2 cut(s)	391, 677
BmgT120I	GGNCC	4 cut(s)	394, 443, 476, 688
BmiI	GGNNCC	3 cut(s)	307, 546, 633
BmrFI	CCNGG	3 cut(s)	322, 365, 542
BmsI	GCATC	1 cut(s)	43
BplI	GAGNNNNNCTC	4 cut(s)	207, 239, 445, 477
BpmI	CTGGAG	3 cut(s)	315, 369, 543
Bpu14I	TTCGAA	1 cut(s)	596
BsaHI	GRCGYC	1 cut(s)	326
BsaJI	CCNNGG	3 cut(s)	321, 363, 656
BsaWI	WCCGGW	1 cut(s)	693
BsaXI	ACNNNNNCTCC	2 cut(s)	556, 586
Bsc4I	CCNNNNNNNGG	1 cut(s)	392
Bse118I	RCCGGY	1 cut(s)	693
Bse1I	ACTGG	1 cut(s)	474
BseBI	CCWGG	3 cut(s)	322, 365, 542
BseDI	CCNNGG	3 cut(s)	321, 363, 656
BseGI	GGATG	1 cut(s)	538
BseLI	CCNNNNNNNGG	1 cut(s)	392
BseNI	ACTGG	1 cut(s)	474
BseRI	GAGGAG	3 cut(s)	60, 372, 546
Bsh1236I	CGCG	1 cut(s)	658
BshFI	GGCC	1 cut(s)	396
BshTI	ACCGGT	1 cut(s)	693
BsiHKAI	GWGCWC	1 cut(s)	351
BsiHKCI	CYCGRG	2 cut(s)	391, 677
BsiSI	CCGG	5 cut(s)	303, 309, 338, 352, 694
BslFI	GGGAC	2 cut(s)	4, 259
BslI	CCNNNNNNNGG	1 cut(s)	392
BsmAI	GTCTC	1 cut(s)	333
BsmBI	CGTCTC	1 cut(s)	333
BsmFI	GGGAC	2 cut(s)	4, 259
BsmI	GAATGC	1 cut(s)	502
BsnI	GGCC	1 cut(s)	396
BsoBI	CYCGRG	2 cut(s)	391, 677
Bsp119I	TTCGAA	1 cut(s)	596
Bsp1286I	GDGCHC	1 cut(s)	351
Bsp1407I	TGTACA	1 cut(s)	67
Bsp143I	GATC	3 cut(s)	448, 487, 579
BspACI	CCGC	6 cut(s)	397, 575, 629, 653, 656, 658
BspANI	GGCC	1 cut(s)	396
BspFNI	CGCG	1 cut(s)	658
BspLI	GGNNCC	3 cut(s)	307, 546, 633
BspT104I	TTCGAA	1 cut(s)	596
BsrFI	RCCGGY	1 cut(s)	693
BsrGI	TGTACA	1 cut(s)	67
BsrI	ACTGG	1 cut(s)	474
BssAI	RCCGGY	1 cut(s)	693
BssECI	CCNNGG	3 cut(s)	321, 363, 656
BssMI	GATC	3 cut(s)	448, 487, 579
BssNI	GRCGYC	1 cut(s)	326
BssSI	CACGAG	2 cut(s)	315, 344
Bst2BI	CACGAG	2 cut(s)	315, 344
Bst2UI	CCWGG	3 cut(s)	322, 365, 542
Bst4CI	ACNGT	1 cut(s)	118
Bst6I	CTCTTC	3 cut(s)	119, 128, 654
BstACI	GRCGYC	1 cut(s)	326
BstAUI	TGTACA	1 cut(s)	67
BstBI	TTCGAA	1 cut(s)	596
BstC8I	GCNNGC	1 cut(s)	195
BstDSI	CCRYGG	1 cut(s)	656
BstF5I	GGATG	1 cut(s)	538
BstFNI	CGCG	1 cut(s)	658
BstH2I	RGCGCY	1 cut(s)	358
BstHHI	GCGC	3 cut(s)	314, 343, 357
BstKTI	GATC	3 cut(s)	451, 490, 582
BstMAI	GTCTC	1 cut(s)	333
BstMBI	GATC	3 cut(s)	448, 487, 579
BstMWI	GCNNNNNNNGC	1 cut(s)	332
BstNI	CCWGG	3 cut(s)	322, 365, 542
BstSCI	CCNGG	3 cut(s)	320, 363, 540
BstSFI	CTRYAG	1 cut(s)	683
BstUI	CGCG	1 cut(s)	658
BsuRI	GGCC	1 cut(s)	396
BtgI	CCRYGG	1 cut(s)	656
BtsCI	GGATG	1 cut(s)	538
Cac8I	GCNNGC	1 cut(s)	195
CfoI	GCGC	3 cut(s)	314, 343, 357
Cfr10I	RCCGGY	1 cut(s)	693
Cfr13I	GGNCC	4 cut(s)	394, 443, 476, 688
Cfr42I	CCGCGG	1 cut(s)	659
CseI	GACGC	2 cut(s)	315, 398
Csp6I	GTAC	1 cut(s)	68
CspAI	ACCGGT	1 cut(s)	693
CspCI	CAANNNNNGTGG	2 cut(s)	193, 228
CviQI	GTAC	1 cut(s)	68
DpnI	GATC	3 cut(s)	450, 489, 581
DpnII	GATC	3 cut(s)	448, 487, 579
DraI	TTTAAA	1 cut(s)	9
DrdI	GACNNNNNNGTC	2 cut(s)	441, 474
DseDI	GACNNNNNNGTC	2 cut(s)	441, 474
Eam1104I	CTCTTC	3 cut(s)	119, 128, 654
EarI	CTCTTC	3 cut(s)	119, 128, 654
EciI	GGCGGA	1 cut(s)	642
Ecl136II	GAGCTC	1 cut(s)	349
Eco24I	GRGCYC	1 cut(s)	351
Eco32I	GATATC	1 cut(s)	262
Eco47I	GGWCC	3 cut(s)	443, 476, 688
Eco53kI	GAGCTC	1 cut(s)	349
Eco57I	CTGAAG	1 cut(s)	528
Eco88I	CYCGRG	2 cut(s)	391, 677
EcoICRI	GAGCTC	1 cut(s)	349
EcoRI	GAATTC	1 cut(s)	592
EcoRII	CCWGG	3 cut(s)	320, 363, 540
EcoRV	GATATC	1 cut(s)	262
EcoT38I	GRGCYC	1 cut(s)	351
Esp3I	CGTCTC	1 cut(s)	333
FaiI	YATR	2 cut(s)	29, 185
FaqI	GGGAC	2 cut(s)	4, 259
FblI	GTMKAC	3 cut(s)	372, 457, 602
Fnu4HI	GCNGC	3 cut(s)	397, 656, 659
FokI	GGATG	1 cut(s)	545
FriOI	GRGCYC	1 cut(s)	351
Fsp4HI	GCNGC	3 cut(s)	397, 656, 659
FspBI	CTAG	2 cut(s)	90, 252
GlaI	GCGC	3 cut(s)	313, 342, 356
GluI	GCNGC	3 cut(s)	397, 656, 659
GsuI	CTGGAG	3 cut(s)	315, 369, 543
HaeII	RGCGCY	1 cut(s)	358
HaeIII	GGCC	1 cut(s)	396
HapII	CCGG	5 cut(s)	303, 309, 338, 352, 694
HgaI	GACGC	2 cut(s)	315, 398
HhaI	GCGC	3 cut(s)	314, 343, 357
Hin1I	GRCGYC	1 cut(s)	326
Hin6I	GCGC	3 cut(s)	312, 341, 355
HinP1I	GCGC	3 cut(s)	312, 341, 355
HincII	GTYRAC	3 cut(s)	458, 538, 603
HindII	GTYRAC	3 cut(s)	458, 538, 603
HinfI	GANTC	8 cut(s)	17, 233, 389, 424, 438, 454, 518, 663
HpaII	CCGG	5 cut(s)	303, 309, 338, 352, 694
HphI	GGTGA	3 cut(s)	188, 407, 543
Hpy166II	GTNNAC	5 cut(s)	373, 458, 538, 603, 691
Hpy188I	TCNGA	4 cut(s)	102, 453, 492, 523
Hpy188III	TCNNGA	4 cut(s)	90, 386, 446, 485
Hpy8I	GTNNAC	5 cut(s)	373, 458, 538, 603, 691
Hpy99I	CGWCG	4 cut(s)	414, 438, 468, 607
HpyAV	CCTTC	4 cut(s)	96, 298, 503, 558
HpyCH4III	ACNGT	1 cut(s)	118
HpyCH4V	TGCA	2 cut(s)	197, 204
HpyF10VI	GCNNNNNNNGC	1 cut(s)	332
Hsp92I	GRCGYC	1 cut(s)	326
HspAI	GCGC	3 cut(s)	312, 341, 355
KspI	CCGCGG	1 cut(s)	659
Kzo9I	GATC	3 cut(s)	448, 487, 579
LmnI	GCTCC	5 cut(s)	215, 311, 340, 354, 550
LweI	GCATC	1 cut(s)	43
MaeI	CTAG	2 cut(s)	90, 252
MaeIII	GTNAC	1 cut(s)	413
MalI	GATC	3 cut(s)	450, 489, 581
MboI	GATC	3 cut(s)	448, 487, 579
MboII	GAAGA	7 cut(s)	62, 105, 136, 142, 145, 505, 641
MhlI	GDGCHC	1 cut(s)	351
MluCI	AATT	3 cut(s)	23, 165, 592
MlyI	GAGTC	4 cut(s)	26, 383, 432, 463
MseI	TTAA	2 cut(s)	8, 120
MspA1I	CMGCKG	1 cut(s)	658
MspI	CCGG	5 cut(s)	303, 309, 338, 352, 694
MspR9I	CCNGG	3 cut(s)	322, 365, 542
Mva1269I	GAATGC	1 cut(s)	502
MvaI	CCWGG	3 cut(s)	322, 365, 542
MvnI	CGCG	1 cut(s)	658
MwoI	GCNNNNNNNGC	1 cut(s)	332
NdeII	GATC	3 cut(s)	448, 487, 579
NlaIV	GGNNCC	3 cut(s)	307, 546, 633
NmuCI	GTSAC	1 cut(s)	413
NspV	TTCGAA	1 cut(s)	596
PaeR7I	CTCGAG	1 cut(s)	677
PcsI	WCGNNNNNNNCGW	4 cut(s)	433, 463, 602, 675
PctI	GAATGC	1 cut(s)	502
PfeI	GAWTC	4 cut(s)	233, 424, 518, 663
PflFI	GACNNNGTC	1 cut(s)	441
PinAI	ACCGGT	1 cut(s)	693
PkrI	GCNGC	3 cut(s)	398, 657, 660
PleI	GAGTC	4 cut(s)	25, 383, 432, 462
PpsI	GAGTC	4 cut(s)	25, 383, 432, 462
Psp124BI	GAGCTC	1 cut(s)	351
Psp6I	CCWGG	3 cut(s)	320, 363, 540
PspGI	CCWGG	3 cut(s)	320, 363, 540
PspN4I	GGNNCC	3 cut(s)	307, 546, 633
PspPI	GGNCC	4 cut(s)	394, 443, 476, 688
PspXI	VCTCGAGB	1 cut(s)	677
PsyI	GACNNNGTC	1 cut(s)	441
RsaI	GTAC	1 cut(s)	69
RsaNI	GTAC	1 cut(s)	68
SacI	GAGCTC	1 cut(s)	351
SacII	CCGCGG	1 cut(s)	659
SalI	GTCGAC	2 cut(s)	456, 601
SaqAI	TTAA	2 cut(s)	8, 120
SatI	GCNGC	3 cut(s)	397, 656, 659
Sau3AI	GATC	3 cut(s)	448, 487, 579
Sau96I	GGNCC	4 cut(s)	394, 443, 476, 688
SchI	GAGTC	4 cut(s)	26, 383, 432, 463
ScrFI	CCNGG	3 cut(s)	322, 365, 542
SduI	GDGCHC	1 cut(s)	351
SfaNI	GCATC	1 cut(s)	43
SfcI	CTRYAG	1 cut(s)	683
Sfr274I	CTCGAG	1 cut(s)	677
Sfr303I	CCGCGG	1 cut(s)	659
SfuI	TTCGAA	1 cut(s)	596
SgrBI	CCGCGG	1 cut(s)	659
SinI	GGWCC	3 cut(s)	443, 476, 688
SlaI	CTCGAG	1 cut(s)	677
SmlI	CTYRAG	1 cut(s)	677
SmoI	CTYRAG	1 cut(s)	677
Sse9I	AATT	3 cut(s)	23, 165, 592
SsiI	CCGC	6 cut(s)	397, 575, 629, 653, 656, 658
SspMI	CTAG	2 cut(s)	90, 252
SstI	GAGCTC	1 cut(s)	351
StyD4I	CCNGG	3 cut(s)	320, 363, 540
TaaI	ACNGT	1 cut(s)	118
TaqI	TCGA	9 cut(s)	359, 427, 433, 457, 463, 596, 602, 669, 678
TaqII	GACCGA	1 cut(s)	431
TasI	AATT	3 cut(s)	23, 165, 592
TatI	WGTACW	1 cut(s)	67
TauI	GCSGC	3 cut(s)	399, 658, 661
TfiI	GAWTC	4 cut(s)	233, 424, 518, 663
Tru1I	TTAA	2 cut(s)	8, 120
Tru9I	TTAA	2 cut(s)	8, 120
TseFI	GTSAC	1 cut(s)	413
Tsp45I	GTSAC	1 cut(s)	413
TspDTI	ATGAA	1 cut(s)	655
Tth111I	GACNNNGTC	1 cut(s)	441
VpaK11BI	GGWCC	3 cut(s)	443, 476, 688
XapI	RAATTY	2 cut(s)	165, 592
XbaI	TCTAGA	1 cut(s)	89
XhoI	CTCGAG	1 cut(s)	677
XmiI	GTMKAC	3 cut(s)	372, 457, 602
XspI	CTAG	2 cut(s)	90, 252

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