Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1C

Orthogroup ID

OG0013776

Physical Location & Seq

Genomic Coordinates Reverse (-)

30403277 .. 30404826

Gene Structure 1550 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1CG139400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 606 bp

ATGACAATGGAACTGACGCCGAACGCGGTGGTCGCCATCATCGGCGGCAATGTCGACTTGAAGCCGGTGTTGCAAGTCACCGATATCAATCCCATCAGGCCCACCAGCTTGCCAGTGTGTTACCGGTTGATGGTTTCCGACGGTGTTTGGTCTCATCACGCCATGGTCGCCTTTCAGCTCAACGACCTATTTGGGACTGACCAGGTCAAGAAAGGCTCAGTCGTCCGGTTCACCGACTACATTTGCACCGATGTCCAGGACCGCAAGCTTATTGTTGTGATGAATATGGAAACTATTGTACTGGACTGGGAGCTTATTGGGAATCCAAAACAATATGTAAAGTCTGGTACAACTGCTCAAACTGCATTGCCTAAGAACAATTTCCAGCAGTCTGCCTATGGCAACATTCATATGATTGGCCAAGAGCCTGTTTCCAAATGGCAGAATCCCAGGCCCTCTTTTCATCCTGAAAACTCTGTTTCCAGTATGCCAAATGTCAGACCTACATTTCAATCTGAAAGCTCTTCTGACAGTGTTCCGAATCCGAGACCTACATTACATCCTGAAAGCTCAGCTCCCAGTGCAGGGACAGAACCAAATAATTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000228 GO:0000280 GO:0000785 GO:0000790 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005694 GO:0006139 GO:0006259 GO:0006281 GO:0006310 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0006996 GO:0007049 GO:0007059 GO:0007127 GO:0007129 GO:0007131 GO:0007140 GO:0007141 GO:0007275 GO:0007276 GO:0008150 GO:0008152 GO:0009555 GO:0009987 GO:0016043 GO:0019953 GO:0022402 GO:0022412 GO:0022414 GO:0022607 GO:0031974 GO:0031981 GO:0032501 GO:0032502 GO:0032504 GO:0033554 GO:0034641 GO:0035825 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044085 GO:0044237 GO:0044238 GO:0044260 GO:0044422 GO:0044424 GO:0044427 GO:0044428 GO:0044446 GO:0044454 GO:0044464 GO:0044703 GO:0045132 GO:0045143 GO:0046483 GO:0048229 GO:0048232 GO:0048285 GO:0048609 GO:0048856 GO:0050896 GO:0051026 GO:0051276 GO:0051321 GO:0051704 GO:0051716 GO:0061982 GO:0070013 GO:0070192 GO:0071704 GO:0071840 GO:0090304 GO:0098813 GO:0140013 GO:1901360 GO:1903046

KEGG Pathways

Metabolic & Signaling

ko03030 ko03420 ko03430 ko03440 ko03460 map03030 map03420 map03430 map03440 map03460

Pfam Domains

Protein Families

REPA_OB_2 Rep-A_N Rep_fac-A_C tRNA_anti-codon

Protein Analysis

201

Amino Acids

22.17

Weight (kDa)

5.92

Isoelectric Point (pI)

40.81

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Rep-A_N	PF04057	5 - 100	6.5e-24	Replication factor-A protein 1, N-terminal domain

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

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Publication-ready

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Orthologous Genes (Group: OG0013776)

Species	Orthologous Gene IDs
rosa_laevigata	RLG00000029349
rosa_multiflora	Rmu_sc0002196.1_g000001 Rmu_sc0003819.1_g000015 Rmu_sc0004006.1_g000001 Rmu_sc0030815.1_g000001
rosa_roxburghii	Rroxscaffold_4G00315470
rosa_rugosa	Rorug01G0126800 Rorug06G0062600 Rorug06G0067700 Rorug06G0067800
rosa_samantha	Rh1AG148000 Rh1BG115800 Rh1BG115900 Rh1CG139400 Rh1DG154400 Rh6AG187300 Rh6BG190600
rosa_wichuraiana	Rw1G011950

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	54
AccII	CGCG	1 cut(s)	26
AciI	CCGC	3 cut(s)	26, 45, 262
AcoI	YGGCCR	1 cut(s)	418
AcyI	GRCGYC	1 cut(s)	17
AfaI	GTAC	2 cut(s)	300, 349
AfiI	CCNNNNNNNGG	3 cut(s)	130, 584, 585
AgeI	ACCGGT	1 cut(s)	123
AgsI	TTSAA	2 cut(s)	61, 512
AjnI	CCWGG	3 cut(s)	201, 255, 449
AluBI	AGCT	7 cut(s)	108, 178, 268, 313, 522, 570, 575
AluI	AGCT	7 cut(s)	108, 178, 268, 313, 522, 570, 575
Alw26I	GTCTC	2 cut(s)	156, 541
AoxI	GGCC	3 cut(s)	98, 418, 452
AsiGI	ACCGGT	1 cut(s)	123
Asp700I	GAANNNNTTC	1 cut(s)	380
AspS9I	GGNCC	3 cut(s)	99, 259, 453
AsuHPI	GGTGA	2 cut(s)	70, 223
AvaII	GGWCC	1 cut(s)	259
BalI	TGGCCA	1 cut(s)	420
BccI	CCATC	3 cut(s)	44, 101, 124
BciT130I	CCWGG	3 cut(s)	203, 257, 451
BcoDI	GTCTC	2 cut(s)	156, 541
BisI	GCNGC	1 cut(s)	46
BlpI	GCTNAGC	1 cut(s)	571
BlsI	GCNGC	1 cut(s)	47
Bme1390I	CCNGG	3 cut(s)	203, 257, 451
Bme18I	GGWCC	1 cut(s)	259
BmgT120I	GGNCC	3 cut(s)	99, 259, 453
BmrFI	CCNGG	3 cut(s)	203, 257, 451
BmrI	ACTGGG	2 cut(s)	316, 573
BmuI	ACTGGG	2 cut(s)	316, 573
Bpu1102I	GCTNAGC	1 cut(s)	571
BsaBI	GATNNNNATC	1 cut(s)	87
BsaHI	GRCGYC	1 cut(s)	17
BsaI	GGTCTC	2 cut(s)	156, 541
BsaJI	CCNNGG	2 cut(s)	162, 449
BsaWI	WCCGGW	2 cut(s)	123, 225
Bsc4I	CCNNNNNNNGG	3 cut(s)	130, 584, 585
Bse118I	RCCGGY	2 cut(s)	64, 123
Bse1I	ACTGG	5 cut(s)	113, 306, 311, 483, 579
Bse3DI	GCAATG	2 cut(s)	55, 365
Bse8I	GATNNNNATC	1 cut(s)	87
BseBI	CCWGG	3 cut(s)	203, 257, 451
BseDI	CCNNGG	2 cut(s)	162, 449
BseGI	GGATG	2 cut(s)	463, 559
BseJI	GATNNNNATC	1 cut(s)	87
BseLI	CCNNNNNNNGG	3 cut(s)	130, 584, 585
BseMI	GCAATG	2 cut(s)	55, 365
BseMII	CTCAG	2 cut(s)	231, 585
BseNI	ACTGG	5 cut(s)	113, 306, 311, 483, 579
BsgI	GTGCAG	1 cut(s)	603
Bsh1236I	CGCG	1 cut(s)	26
BshFI	GGCC	3 cut(s)	100, 420, 454
BshTI	ACCGGT	1 cut(s)	123
BsiSI	CCGG	3 cut(s)	65, 124, 226
BslFI	GGGAC	2 cut(s)	208, 601
BslI	CCNNNNNNNGG	3 cut(s)	130, 584, 585
BsmAI	GTCTC	2 cut(s)	156, 541
BsmFI	GGGAC	2 cut(s)	208, 601
BsnI	GGCC	3 cut(s)	100, 420, 454
Bso31I	GGTCTC	2 cut(s)	156, 541
Bsp1720I	GCTNAGC	1 cut(s)	571
Bsp19I	CCATGG	1 cut(s)	162
BspACI	CCGC	3 cut(s)	26, 45, 262
BspANI	GGCC	3 cut(s)	100, 420, 454
BspCNI	CTCAG	2 cut(s)	230, 584
BspFNI	CGCG	1 cut(s)	26
BspQI	GCTCTTC	1 cut(s)	529
BspTNI	GGTCTC	2 cut(s)	156, 541
BsrDI	GCAATG	2 cut(s)	55, 365
BsrFI	RCCGGY	2 cut(s)	64, 123
BsrI	ACTGG	5 cut(s)	113, 306, 311, 483, 579
BssAI	RCCGGY	2 cut(s)	64, 123
BssECI	CCNNGG	2 cut(s)	162, 449
BssNI	GRCGYC	1 cut(s)	17
BssT1I	CCWWGG	1 cut(s)	162
Bst2UI	CCWGG	3 cut(s)	203, 257, 451
Bst4CI	ACNGT	2 cut(s)	143, 533
Bst6I	CTCTTC	1 cut(s)	529
BstACI	GRCGYC	1 cut(s)	17
BstC8I	GCNNGC	2 cut(s)	110, 266
BstDEI	CTNAG	3 cut(s)	217, 372, 571
BstDSI	CCRYGG	1 cut(s)	162
BstF5I	GGATG	2 cut(s)	463, 559
BstFNI	CGCG	1 cut(s)	26
BstMAI	GTCTC	2 cut(s)	156, 541
BstMWI	GCNNNNNNNGC	5 cut(s)	32, 70, 167, 362, 581
BstNI	CCWGG	3 cut(s)	203, 257, 451
BstSCI	CCNGG	3 cut(s)	201, 255, 449
BstUI	CGCG	1 cut(s)	26
BsuRI	GGCC	3 cut(s)	100, 420, 454
BtgI	CCRYGG	1 cut(s)	162
BtsCI	GGATG	2 cut(s)	463, 559
BtsIMutI	CAGTG	3 cut(s)	120, 538, 586
Cac8I	GCNNGC	2 cut(s)	110, 266
Cfr10I	RCCGGY	2 cut(s)	64, 123
Cfr13I	GGNCC	3 cut(s)	99, 259, 453
CseI	GACGC	1 cut(s)	25
CsiI	ACCWGGT	1 cut(s)	201
Csp6I	GTAC	2 cut(s)	299, 348
CspAI	ACCGGT	1 cut(s)	123
CviAII	CATG	1 cut(s)	163
CviQI	GTAC	2 cut(s)	299, 348
DdeI	CTNAG	3 cut(s)	217, 372, 571
EaeI	YGGCCR	1 cut(s)	418
Eam1104I	CTCTTC	1 cut(s)	529
EarI	CTCTTC	1 cut(s)	529
Eco130I	CCWWGG	1 cut(s)	162
Eco31I	GGTCTC	2 cut(s)	156, 541
Eco32I	GATATC	1 cut(s)	85
Eco47I	GGWCC	1 cut(s)	259
EcoO109I	RGGNCCY	1 cut(s)	453
EcoRII	CCWGG	3 cut(s)	201, 255, 449
EcoRV	GATATC	1 cut(s)	85
EcoT14I	CCWWGG	1 cut(s)	162
ErhI	CCWWGG	1 cut(s)	162
FaeI	CATG	1 cut(s)	166
FaiI	YATR	7 cut(s)	164, 287, 336, 399, 411, 413, 488
FaqI	GGGAC	2 cut(s)	208, 601
FatI	CATG	1 cut(s)	162
FauNDI	CATATG	1 cut(s)	411
FblI	GTMKAC	1 cut(s)	54
Fnu4HI	GCNGC	1 cut(s)	46
FokI	GGATG	2 cut(s)	450, 546
Fsp4HI	GCNGC	1 cut(s)	46
GluI	GCNGC	1 cut(s)	46
HaeIII	GGCC	3 cut(s)	100, 420, 454
HapII	CCGG	3 cut(s)	65, 124, 226
HgaI	GACGC	1 cut(s)	25
Hin1I	GRCGYC	1 cut(s)	17
Hin1II	CATG	1 cut(s)	166
HincII	GTYRAC	1 cut(s)	55
HindII	GTYRAC	1 cut(s)	55
HindIII	AAGCTT	1 cut(s)	266
HinfI	GANTC	3 cut(s)	322, 445, 541
HpaII	CCGG	3 cut(s)	65, 124, 226
HphI	GGTGA	2 cut(s)	70, 223
Hpy166II	GTNNAC	2 cut(s)	55, 231
Hpy188I	TCNGA	6 cut(s)	139, 500, 517, 529, 540, 546
Hpy188III	TCNNGA	3 cut(s)	208, 467, 563
Hpy8I	GTNNAC	2 cut(s)	55, 231
Hpy99I	CGWCG	1 cut(s)	143
HpyCH4III	ACNGT	2 cut(s)	143, 533
HpyCH4V	TGCA	4 cut(s)	73, 246, 365, 584
HpyF10VI	GCNNNNNNNGC	5 cut(s)	32, 70, 167, 362, 581
HpyF3I	CTNAG	3 cut(s)	217, 372, 571
Hsp92I	GRCGYC	1 cut(s)	17
Hsp92II	CATG	1 cut(s)	166
LguI	GCTCTTC	1 cut(s)	529
LmnI	GCTCC	2 cut(s)	310, 580
MabI	ACCWGGT	1 cut(s)	201
MaeIII	GTNAC	2 cut(s)	76, 119
MboII	GAAGA	1 cut(s)	516
MlsI	TGGCCA	1 cut(s)	420
MluCI	AATT	2 cut(s)	379, 601
MluNI	TGGCCA	1 cut(s)	420
MmeI	TCCRAC	1 cut(s)	162
MnlI	CCTC	1 cut(s)	466
Mox20I	TGGCCA	1 cut(s)	420
MroXI	GAANNNNTTC	1 cut(s)	380
MscI	TGGCCA	1 cut(s)	420
MseI	TTAA	1 cut(s)	604
MslI	CAYNNNNRTG	1 cut(s)	410
Msp20I	TGGCCA	1 cut(s)	420
MspI	CCGG	3 cut(s)	65, 124, 226
MspR9I	CCNGG	3 cut(s)	203, 257, 451
MvaI	CCWGG	3 cut(s)	203, 257, 451
MvnI	CGCG	1 cut(s)	26
MwoI	GCNNNNNNNGC	5 cut(s)	32, 70, 167, 362, 581
NcoI	CCATGG	1 cut(s)	162
NdeI	CATATG	1 cut(s)	411
NlaIII	CATG	1 cut(s)	166
NmuCI	GTSAC	1 cut(s)	76
PciSI	GCTCTTC	1 cut(s)	529
PdmI	GAANNNNTTC	1 cut(s)	380
PfeI	GAWTC	3 cut(s)	322, 445, 541
PflFI	GACNNNGTC	1 cut(s)	203
PfoI	TCCNGGA	1 cut(s)	255
PinAI	ACCGGT	1 cut(s)	123
PkrI	GCNGC	1 cut(s)	47
Psp6I	CCWGG	3 cut(s)	201, 255, 449
PspGI	CCWGG	3 cut(s)	201, 255, 449
PspPI	GGNCC	3 cut(s)	99, 259, 453
PsyI	GACNNNGTC	1 cut(s)	203
RsaI	GTAC	2 cut(s)	300, 349
RsaNI	GTAC	2 cut(s)	299, 348
RseI	CAYNNNNRTG	1 cut(s)	410
SalI	GTCGAC	1 cut(s)	53
SapI	GCTCTTC	1 cut(s)	529
SaqAI	TTAA	1 cut(s)	604
SatI	GCNGC	1 cut(s)	46
Sau96I	GGNCC	3 cut(s)	99, 259, 453
ScrFI	CCNGG	3 cut(s)	203, 257, 451
SexAI	ACCWGGT	1 cut(s)	201
SinI	GGWCC	1 cut(s)	259
SmiMI	CAYNNNNRTG	1 cut(s)	410
Sse9I	AATT	2 cut(s)	379, 601
SsiI	CCGC	3 cut(s)	26, 45, 262
StyD4I	CCNGG	3 cut(s)	201, 255, 449
StyI	CCWWGG	1 cut(s)	162
TaaI	ACNGT	2 cut(s)	143, 533
TaqI	TCGA	1 cut(s)	54
TasI	AATT	2 cut(s)	379, 601
TatI	WGTACW	1 cut(s)	298
TauI	GCSGC	1 cut(s)	48
TfiI	GAWTC	3 cut(s)	322, 445, 541
Tru1I	TTAA	1 cut(s)	604
Tru9I	TTAA	1 cut(s)	604
TscAI	CASTG	3 cut(s)	120, 538, 586
TseFI	GTSAC	1 cut(s)	76
Tsp45I	GTSAC	1 cut(s)	76
TspDTI	ATGAA	3 cut(s)	296, 398, 452
TspRI	CASTG	3 cut(s)	120, 538, 586
Tth111I	GACNNNGTC	1 cut(s)	203
VpaK11BI	GGWCC	1 cut(s)	259
XmiI	GTMKAC	1 cut(s)	54
XmnI	GAANNNNTTC	1 cut(s)	380

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