Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2C

Orthogroup ID

OG0003001

Physical Location & Seq

Genomic Coordinates Forward (+)

33361855 .. 33367954

Gene Structure 6100 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2CG293500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 408 bp

ATGGCGAAATGGCTCTTGAGATTGCAGATCGTATGTGCAGATCTGGTGCCATTGATCTTATCTGTGTCGATTCTGTCTCGGCTCTCACTCCATGAGCAGAAATTGAAGATGCAACAAATGGGTTTGCAAGCACGCTTTATGAGCCAAGCTTTGCGCAAAATGTCGGGAAATGCATCTAAAGCTGGATGTACTCTCATATTCTTGAATCAAATAAGATATAAGATTGGTGTGTATTATGGGAATCCAGAAGTGACATCTGGAGGAATTGCATTAAAGTTCTTTGCCTCAGTTCGCCTGGAAATACGTTCTACAGGGAAAATAAAATATGTAAAAGGAGACGAGGAAATTGGGGTTCGGGTCCGTGAACGAGTGCAAAAGAGTAAGGTACTTTTAAAAACATCAGAATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000150 GO:0000217 GO:0000400 GO:0000724 GO:0000725 GO:0000730 GO:0003674 GO:0003676 GO:0003677 GO:0003690 GO:0003697 GO:0003824 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006139 GO:0006259 GO:0006281 GO:0006302 GO:0006310 GO:0006312 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0008094 GO:0008150 GO:0008152 GO:0009314 GO:0009507 GO:0009532 GO:0009536 GO:0009570 GO:0009628 GO:0009987 GO:0010212 GO:0016043 GO:0016462 GO:0016787 GO:0016817 GO:0016818 GO:0016887 GO:0017111 GO:0022607 GO:0033554 GO:0034622 GO:0034641 GO:0042148 GO:0042623 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043933 GO:0044085 GO:0044237 GO:0044238 GO:0044260 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464 GO:0045003 GO:0046483 GO:0050896 GO:0051716 GO:0065003 GO:0065004 GO:0071704 GO:0071824 GO:0071840 GO:0090304 GO:0090735 GO:0097159 GO:0140097 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

ko03440 map03440

Pfam Domains

Protein Families

RecA

Protein Analysis

135

Amino Acids

15.22

Weight (kDa)

10.26

Isoelectric Point (pI)

42.26

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RecA_N	PF00154	18 - 129	6.3e-34	RecA 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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Orthologous Genes (Group: OG0003001)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G79050 AT1G79050
fragaria_vesca	FvH4_1g27813
malus_domestica	MD09G1277400.v1.1 MD17G1270800.v1.1
prunus_persica	Prupe.3G015400_v2.0.a1 Prupe.3G015400_v2.0.a1 Prupe.3G015400_v2.0.a1 Prupe.3G015400_v2.0.a1
pyrus_communis	pycom09g18680 pycom17g26930
rosa_chinensis	RchiOBHm_Chr1g0376401 RchiOBHm_Chr3g0485071 RchiOBHm_Chr3g0485081 RchiOBHm_Chr3g0488901 RchiOBHm_Chr3g0488941 RchiOBHm_Chr3g0488951 RchiOBHm_Chr6g0270261
rosa_laevigata	RLG00000001730 RLG00000022906
rosa_multiflora	Rmu_sc0001208.1_g000006
rosa_roxburghii	Rroxscaffold_5G00371550 Rroxscaffold_6G00393780
rosa_rugosa	Rorug03G0242300
rosa_samantha	Rh2CG293500 Rh3AG266100 Rh3AG290500 Rh3BG327500 Rh3CG324800 Rh3DG323400 Rh3DG323700 Rh3DG329000 Rh5AG166700
rosa_wichuraiana	Rw1G015550 Rw1G026850 Rw3G025730 Rw5G015170 Rw7G021290

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	155
AccB1I	GGYRCC	1 cut(s)	46
AfaI	GTAC	2 cut(s)	190, 387
AgsI	TTSAA	2 cut(s)	106, 205
AjnI	CCWGG	1 cut(s)	294
AluBI	AGCT	2 cut(s)	149, 182
AluI	AGCT	2 cut(s)	149, 182
Alw26I	GTCTC	2 cut(s)	81, 330
AspLEI	GCGC	1 cut(s)	156
AspS9I	GGNCC	1 cut(s)	358
AvaII	GGWCC	1 cut(s)	358
BanI	GGYRCC	1 cut(s)	46
BciT130I	CCWGG	1 cut(s)	296
BcoDI	GTCTC	2 cut(s)	81, 330
BfmI	CTRYAG	1 cut(s)	309
BglII	AGATCT	1 cut(s)	40
Bme1390I	CCNGG	1 cut(s)	296
Bme18I	GGWCC	1 cut(s)	358
BmgT120I	GGNCC	1 cut(s)	358
BmiI	GGNNCC	2 cut(s)	48, 359
BmrFI	CCNGG	1 cut(s)	296
BmsI	GCATC	2 cut(s)	99, 182
BpmI	CTGGAG	1 cut(s)	279
BpuEI	CTTGAG	1 cut(s)	37
BseBI	CCWGG	1 cut(s)	296
BseGI	GGATG	1 cut(s)	191
BseMII	CTCAG	1 cut(s)	300
BsgI	GTGCAG	1 cut(s)	57
BshNI	GGYRCC	1 cut(s)	46
BsmAI	GTCTC	2 cut(s)	81, 330
BsmBI	CGTCTC	1 cut(s)	330
Bsp143I	GATC	3 cut(s)	27, 40, 54
BspCNI	CTCAG	1 cut(s)	299
BspLI	GGNNCC	2 cut(s)	48, 359
BspT107I	GGYRCC	1 cut(s)	46
BssMI	GATC	3 cut(s)	27, 40, 54
Bst2UI	CCWGG	1 cut(s)	296
BstC8I	GCNNGC	2 cut(s)	129, 133
BstDEI	CTNAG	1 cut(s)	286
BstF5I	GGATG	1 cut(s)	191
BstHHI	GCGC	1 cut(s)	156
BstKTI	GATC	3 cut(s)	30, 43, 57
BstMAI	GTCTC	2 cut(s)	81, 330
BstMBI	GATC	3 cut(s)	27, 40, 54
BstMWI	GCNNNNNNNGC	2 cut(s)	141, 179
BstNI	CCWGG	1 cut(s)	296
BstSCI	CCNGG	1 cut(s)	294
BstSFI	CTRYAG	1 cut(s)	309
BstX2I	RGATCY	1 cut(s)	40
BstYI	RGATCY	1 cut(s)	40
BtsCI	GGATG	1 cut(s)	191
Cac8I	GCNNGC	2 cut(s)	129, 133
CfoI	GCGC	1 cut(s)	156
Cfr13I	GGNCC	1 cut(s)	358
Csp6I	GTAC	2 cut(s)	189, 386
CviAII	CATG	1 cut(s)	92
CviJI	RGCY	5 cut(s)	13, 82, 144, 149, 182
CviKI_1	RGCY	5 cut(s)	13, 82, 144, 149, 182
CviQI	GTAC	2 cut(s)	189, 386
DdeI	CTNAG	1 cut(s)	286
DpnI	GATC	3 cut(s)	29, 42, 56
DpnII	GATC	3 cut(s)	27, 40, 54
DraI	TTTAAA	1 cut(s)	393
Eco47I	GGWCC	1 cut(s)	358
EcoRII	CCWGG	1 cut(s)	294
EcoT22I	ATGCAT	1 cut(s)	175
Esp3I	CGTCTC	1 cut(s)	330
FaeI	CATG	1 cut(s)	95
FaiI	YATR	7 cut(s)	34, 93, 140, 197, 219, 237, 327
FatI	CATG	1 cut(s)	91
FokI	GGATG	1 cut(s)	198
FspI	TGCGCA	1 cut(s)	155
GlaI	GCGC	1 cut(s)	155
GsuI	CTGGAG	1 cut(s)	279
HhaI	GCGC	1 cut(s)	156
Hin1II	CATG	1 cut(s)	95
Hin6I	GCGC	1 cut(s)	154
HinP1I	GCGC	1 cut(s)	154
HindIII	AAGCTT	1 cut(s)	147
HinfI	GANTC	3 cut(s)	70, 205, 241
Hpy166II	GTNNAC	1 cut(s)	365
Hpy188I	TCNGA	1 cut(s)	403
Hpy188III	TCNNGA	5 cut(s)	16, 165, 202, 245, 258
Hpy8I	GTNNAC	1 cut(s)	365
HpyCH4IV	ACGT	1 cut(s)	304
HpyCH4V	TGCA	7 cut(s)	25, 38, 112, 127, 173, 269, 373
HpyF10VI	GCNNNNNNNGC	2 cut(s)	141, 179
HpyF3I	CTNAG	1 cut(s)	286
HpySE526I	ACGT	1 cut(s)	304
Hsp92II	CATG	1 cut(s)	95
HspAI	GCGC	1 cut(s)	154
Kzo9I	GATC	3 cut(s)	27, 40, 54
LpnPI	CCDG	7 cut(s)	29, 168, 243, 258, 281, 297, 308
LweI	GCATC	2 cut(s)	99, 182
MaeII	ACGT	1 cut(s)	304
MaeIII	GTNAC	1 cut(s)	250
MalI	GATC	3 cut(s)	29, 42, 56
MboI	GATC	3 cut(s)	27, 40, 54
MboII	GAAGA	1 cut(s)	118
MflI	RGATCY	1 cut(s)	40
MluCI	AATT	3 cut(s)	101, 264, 345
MnlI	CCTC	3 cut(s)	254, 295, 334
Mph1103I	ATGCAT	1 cut(s)	175
MseI	TTAA	2 cut(s)	272, 392
MspR9I	CCNGG	1 cut(s)	296
MvaI	CCWGG	1 cut(s)	296
MwoI	GCNNNNNNNGC	2 cut(s)	141, 179
NdeII	GATC	3 cut(s)	27, 40, 54
NlaIII	CATG	1 cut(s)	95
NlaIV	GGNNCC	2 cut(s)	48, 359
NmeAIII	GCCGAG	1 cut(s)	58
NmuCI	GTSAC	1 cut(s)	250
NsbI	TGCGCA	1 cut(s)	155
NsiI	ATGCAT	1 cut(s)	175
PfeI	GAWTC	3 cut(s)	70, 205, 241
Psp6I	CCWGG	1 cut(s)	294
PspGI	CCWGG	1 cut(s)	294
PspN4I	GGNNCC	2 cut(s)	48, 359
PspPI	GGNCC	1 cut(s)	358
PsuI	RGATCY	1 cut(s)	40
RsaI	GTAC	2 cut(s)	190, 387
RsaNI	GTAC	2 cut(s)	189, 386
SaqAI	TTAA	2 cut(s)	272, 392
Sau3AI	GATC	3 cut(s)	27, 40, 54
Sau96I	GGNCC	1 cut(s)	358
ScrFI	CCNGG	1 cut(s)	296
SetI	ASST	4 cut(s)	151, 184, 307, 387
SfaNI	GCATC	2 cut(s)	99, 182
SfcI	CTRYAG	1 cut(s)	309
SinI	GGWCC	1 cut(s)	358
SmlI	CTYRAG	1 cut(s)	16
SmoI	CTYRAG	1 cut(s)	16
Sse9I	AATT	3 cut(s)	101, 264, 345
StyD4I	CCNGG	1 cut(s)	294
TaiI	ACGT	1 cut(s)	307
TaqI	TCGA	1 cut(s)	68
TasI	AATT	3 cut(s)	101, 264, 345
TatI	WGTACW	1 cut(s)	188
TfiI	GAWTC	3 cut(s)	70, 205, 241
Tru1I	TTAA	2 cut(s)	272, 392
Tru9I	TTAA	2 cut(s)	272, 392
TseFI	GTSAC	1 cut(s)	250
Tsp45I	GTSAC	1 cut(s)	250
TspGWI	ACGGA	1 cut(s)	350
VpaK11BI	GGWCC	1 cut(s)	358
Zsp2I	ATGCAT	1 cut(s)	175

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