Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4B

Orthogroup ID

OG0001974

Physical Location & Seq

Genomic Coordinates Reverse (-)

34700487 .. 34705095

Gene Structure 4609 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4BG202600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 528 bp

ATGTTTGAGATGGGCAACACCAAAGTTGTTGCTGCCGTATATGGCCCTAGAGAGGTCCAAAATAGGAGCCAACAACTGAATGCCAATGCATTGGTGCGATGTGAATACACCATGGCAAATTTTAGTACCGGAGATCGGATGAGAAAACCGAAGGGTGATAGGAGATCCACAGAGATATCTCTAGTTATTCGCCAAACCATGGAAGAATGCATTTTGACAAATTTAATGCCTCGGTCTCAGATAGACATTTTTGTGCAAGTTCTCCAAGCAGATGGAGGAACTAGATCTGCATGTATCAATGCTGCAACCCTGGCCCTTGCAGACGCTGGAATTCCAATGCGGGATCTTGTTACTTCCTGCAGTGCTGGGTACCTTAACAGCACACCTCTACTTGATTTAAACTATATAGAAGATAGTGCTGGAGGTGCTGATGTCACTTTAGGAATTATGCCGAAGTTGGATAAAGTGACTCTTCTTCAGGTTCTTAAAATCATAATCTGTTATCTGATTTTCTCTTCCCAACTTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000175 GO:0000176 GO:0000177 GO:0000178 GO:0000288 GO:0000291 GO:0000460 GO:0000785 GO:0000956 GO:0001558 GO:0002252 GO:0002376 GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004527 GO:0004532 GO:0004540 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005694 GO:0005730 GO:0005737 GO:0005829 GO:0005856 GO:0006139 GO:0006259 GO:0006304 GO:0006364 GO:0006396 GO:0006401 GO:0006402 GO:0006725 GO:0006807 GO:0006950 GO:0006952 GO:0008150 GO:0008152 GO:0008334 GO:0008408 GO:0009056 GO:0009057 GO:0009605 GO:0009607 GO:0009615 GO:0009892 GO:0009894 GO:0009987 GO:0010467 GO:0010468 GO:0010605 GO:0010608 GO:0010629 GO:0016070 GO:0016071 GO:0016072 GO:0016073 GO:0016074 GO:0016075 GO:0016180 GO:0016787 GO:0016788 GO:0016796 GO:0016896 GO:0017091 GO:0019219 GO:0019222 GO:0019439 GO:0022613 GO:0030307 GO:0031123 GO:0031125 GO:0031126 GO:0031323 GO:0031329 GO:0031974 GO:0031981 GO:0032991 GO:0034427 GO:0034470 GO:0034472 GO:0034475 GO:0034641 GO:0034655 GO:0034660 GO:0034661 GO:0035327 GO:0040008 GO:0042254 GO:0043144 GO:0043170 GO:0043207 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043412 GO:0043487 GO:0043488 GO:0043628 GO:0043928 GO:0044085 GO:0044237 GO:0044238 GO:0044248 GO:0044260 GO:0044265 GO:0044270 GO:0044422 GO:0044424 GO:0044427 GO:0044428 GO:0044444 GO:0044446 GO:0044464 GO:0045006 GO:0045111 GO:0045927 GO:0046483 GO:0046700 GO:0048518 GO:0048519 GO:0048522 GO:0050789 GO:0050794 GO:0050896 GO:0051128 GO:0051171 GO:0051252 GO:0051607 GO:0051704 GO:0051707 GO:0060255 GO:0061013 GO:0065007 GO:0065008 GO:0070013 GO:0071025 GO:0071027 GO:0071028 GO:0071044 GO:0071051 GO:0071704 GO:0071840 GO:0080090 GO:0090304 GO:0090305 GO:0090501 GO:0090503 GO:0097159 GO:0098542 GO:0140098 GO:1901360 GO:1901361 GO:1901363 GO:1901575 GO:1902494 GO:1903311 GO:1905354

KEGG Pathways

Metabolic & Signaling

ko03018 map03018

Pfam Domains

Protein Families

RNase_PH RNase_PH_C

Protein Analysis

175

Amino Acids

19.17

Weight (kDa)

6.27

Isoelectric Point (pI)

39.71

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNase_PH	PF01138	1 - 112	1.2e-32	3' exoribonuclease family, domain 1
RNase_PH_C	PF03725	115 - 160	9.5e-08	3' exoribonuclease family, domain 2

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: OG0001974)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G61620 AT3G61620
fragaria_vesca	FvH4_2g10710 FvH4_2g10710 FvH4_4g15330 FvH4_4g15330
malus_domestica	MD01G1224600.v1.1 MD13G1191700.v1.1 MD16G1191800.v1.1
prunus_persica	Prupe.1G011800_v2.0.a1
pyrus_communis	pycom16g16150
rosa_chinensis	RchiOBHm_Chr4g0416511 RchiOBHm_Chr6g0268411 RchiOBHm_Chr6g0271671 RchiOBHm_Chr7g0217091
rosa_laevigata	RLG00000007977 RLG00000013911
rosa_multiflora	Rmu_sc0002404.1_g000014 Rmu_sc0003132.1_g000002 Rmu_sc0003722.1_g000025
rosa_roxburghii	Rroxscaffold_3G00242590 Rroxscaffold_5G00360380 Rroxscaffold_7G00199820
rosa_rugosa	Rorug04G0142300 Rorug06G0041900 Rorug07G0165900 Rorug07G0166000 Rorug07G0166100 Rorug07G0166100
rosa_samantha	Rh4AG204800 Rh4BG202600 Rh4CG216000 Rh4DG202000 Rh6AG161200 Rh6BG165500 Rh6BG165600 Rh6CG159100 Rh6DG151400 Rh7AG305400 Rh7BG297000 Rh7CG324500 Rh7DG305600
rosa_wichuraiana	Rw4G017320 Rw6G013950 Rw7G025940

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc65I	GGTACC	1 cut(s)	369
AccB1I	GGYRCC	1 cut(s)	369
AccB7I	CCANNNNNTGG	1 cut(s)	199
AciI	CCGC	1 cut(s)	340
AclWI	GGATC	2 cut(s)	159, 351
AcsI	RAATTY	3 cut(s)	118, 220, 330
AcuI	CTGAAG	1 cut(s)	461
AfaI	GTAC	2 cut(s)	127, 371
AfiI	CCNNNNNNNGG	3 cut(s)	52, 135, 199
AjnI	CCWGG	1 cut(s)	309
Alw26I	GTCTC	1 cut(s)	240
AlwI	GGATC	2 cut(s)	159, 351
AlwNI	CAGNNNCTG	1 cut(s)	326
AoxI	GGCC	2 cut(s)	43, 312
ApeKI	GCWGC	2 cut(s)	32, 302
ApoI	RAATTY	3 cut(s)	118, 220, 330
Asp718I	GGTACC	1 cut(s)	369
AspS9I	GGNCC	3 cut(s)	44, 55, 313
AsuHPI	GGTGA	1 cut(s)	167
AvaII	GGWCC	1 cut(s)	55
BanI	GGYRCC	1 cut(s)	369
BbvI	GCAGC	2 cut(s)	19, 289
BccI	CCATC	2 cut(s)	4, 266
BceAI	ACGGC	1 cut(s)	20
BciT130I	CCWGG	1 cut(s)	311
BcoDI	GTCTC	1 cut(s)	240
BfaI	CTAG	3 cut(s)	48, 182, 282
BfmI	CTRYAG	1 cut(s)	358
BglII	AGATCT	1 cut(s)	284
BisI	GCNGC	2 cut(s)	33, 303
BlsI	GCNGC	2 cut(s)	34, 304
Bme1390I	CCNGG	1 cut(s)	311
Bme18I	GGWCC	1 cut(s)	55
BmgT120I	GGNCC	3 cut(s)	44, 55, 313
BmiI	GGNNCC	2 cut(s)	68, 371
BmrFI	CCNGG	1 cut(s)	311
BpmI	CTGGAG	1 cut(s)	441
BsaI	GGTCTC	1 cut(s)	240
BsaJI	CCNNGG	4 cut(s)	111, 198, 230, 309
BsaWI	WCCGGW	1 cut(s)	128
Bsc4I	CCNNNNNNNGG	3 cut(s)	52, 135, 199
BseBI	CCWGG	1 cut(s)	311
BseDI	CCNNGG	4 cut(s)	111, 198, 230, 309
BseGI	GGATG	1 cut(s)	144
BseLI	CCNNNNNNNGG	3 cut(s)	52, 135, 199
BseMII	CTCAG	1 cut(s)	251
BseXI	GCAGC	2 cut(s)	19, 289
BseYI	CCCAGC	1 cut(s)	365
BshFI	GGCC	2 cut(s)	45, 314
BshNI	GGYRCC	1 cut(s)	369
BsiSI	CCGG	1 cut(s)	129
BslI	CCNNNNNNNGG	3 cut(s)	52, 135, 199
BsmAI	GTCTC	1 cut(s)	240
BsmI	GAATGC	2 cut(s)	85, 212
BsnI	GGCC	2 cut(s)	45, 314
Bso31I	GGTCTC	1 cut(s)	240
Bsp143I	GATC	4 cut(s)	133, 164, 284, 343
Bsp19I	CCATGG	2 cut(s)	111, 198
BspACI	CCGC	1 cut(s)	340
BspANI	GGCC	2 cut(s)	45, 314
BspCNI	CTCAG	1 cut(s)	250
BspLI	GGNNCC	2 cut(s)	68, 371
BspMAI	CTGCAG	1 cut(s)	362
BspPI	GGATC	2 cut(s)	159, 351
BspT107I	GGYRCC	1 cut(s)	369
BspTNI	GGTCTC	1 cut(s)	240
BssECI	CCNNGG	4 cut(s)	111, 198, 230, 309
BssMI	GATC	4 cut(s)	133, 164, 284, 343
BssT1I	CCWWGG	2 cut(s)	111, 198
Bst2UI	CCWGG	1 cut(s)	311
Bst6I	CTCTTC	2 cut(s)	477, 520
BstDEI	CTNAG	1 cut(s)	237
BstDSI	CCRYGG	2 cut(s)	111, 198
BstF5I	GGATG	1 cut(s)	144
BstKTI	GATC	4 cut(s)	136, 167, 287, 346
BstMAI	GTCTC	1 cut(s)	240
BstMBI	GATC	4 cut(s)	133, 164, 284, 343
BstMWI	GCNNNNNNNGC	2 cut(s)	311, 425
BstNI	CCWGG	1 cut(s)	311
BstNSI	RCATGY	1 cut(s)	294
BstSCI	CCNGG	1 cut(s)	309
BstSFI	CTRYAG	1 cut(s)	358
BstV1I	GCAGC	2 cut(s)	19, 289
BstX2I	RGATCY	3 cut(s)	164, 284, 343
BstXI	CCANNNNNNTGG	2 cut(s)	91, 272
BstYI	RGATCY	3 cut(s)	164, 284, 343
BsuRI	GGCC	2 cut(s)	45, 314
BtgI	CCRYGG	2 cut(s)	111, 198
BtgZI	GCGATG	1 cut(s)	112
BtsCI	GGATG	1 cut(s)	144
BtsI	GCAGTG	1 cut(s)	367
BtsIMutI	CAGTG	1 cut(s)	367
CaiI	CAGNNNCTG	1 cut(s)	326
Cfr13I	GGNCC	3 cut(s)	44, 55, 313
CseI	GACGC	1 cut(s)	332
Csp6I	GTAC	2 cut(s)	126, 370
CviAII	CATG	3 cut(s)	112, 199, 291
CviJI	RGCY	3 cut(s)	45, 69, 314
CviKI_1	RGCY	3 cut(s)	45, 69, 314
CviQI	GTAC	2 cut(s)	126, 370
DdeI	CTNAG	1 cut(s)	237
DpnI	GATC	4 cut(s)	135, 166, 286, 345
DpnII	GATC	4 cut(s)	133, 164, 284, 343
DraI	TTTAAA	1 cut(s)	399
Eam1104I	CTCTTC	2 cut(s)	477, 520
EarI	CTCTTC	2 cut(s)	477, 520
Eco130I	CCWWGG	2 cut(s)	111, 198
Eco31I	GGTCTC	1 cut(s)	240
Eco32I	GATATC	1 cut(s)	177
Eco47I	GGWCC	1 cut(s)	55
Eco57I	CTGAAG	1 cut(s)	461
EcoRI	GAATTC	1 cut(s)	330
EcoRII	CCWGG	1 cut(s)	309
EcoRV	GATATC	1 cut(s)	177
EcoT14I	CCWWGG	2 cut(s)	111, 198
EcoT22I	ATGCAT	2 cut(s)	91, 212
ErhI	CCWWGG	2 cut(s)	111, 198
FaeI	CATG	3 cut(s)	115, 202, 294
FaiI	YATR	9 cut(s)	40, 42, 113, 200, 292, 405, 407, 449, 494
FalI	AAGNNNNNCTT	2 cut(s)	456, 488
FatI	CATG	3 cut(s)	111, 198, 290
FauI	CCCGC	1 cut(s)	333
Fnu4HI	GCNGC	2 cut(s)	33, 303
FokI	GGATG	1 cut(s)	151
Fsp4HI	GCNGC	2 cut(s)	33, 303
FspBI	CTAG	3 cut(s)	48, 182, 282
GluI	GCNGC	2 cut(s)	33, 303
GsaI	CCCAGC	1 cut(s)	369
GsuI	CTGGAG	1 cut(s)	441
HaeIII	GGCC	2 cut(s)	45, 314
HapII	CCGG	1 cut(s)	129
HgaI	GACGC	1 cut(s)	332
Hin1II	CATG	3 cut(s)	115, 202, 294
HinfI	GANTC	1 cut(s)	469
HpaII	CCGG	1 cut(s)	129
HphI	GGTGA	1 cut(s)	167
Hpy188I	TCNGA	3 cut(s)	138, 240, 507
HpyAV	CCTTC	1 cut(s)	145
HpyCH4V	TGCA	7 cut(s)	89, 210, 256, 290, 305, 320, 360
HpyF10VI	GCNNNNNNNGC	2 cut(s)	311, 425
HpyF3I	CTNAG	1 cut(s)	237
Hsp92II	CATG	3 cut(s)	115, 202, 294
KpnI	GGTACC	1 cut(s)	373
Kzo9I	GATC	4 cut(s)	133, 164, 284, 343
LmnI	GCTCC	1 cut(s)	66
LpnPI	CCDG	8 cut(s)	142, 296, 312, 323, 351, 370, 405, 464
Lsp1109I	GCAGC	2 cut(s)	19, 289
MaeI	CTAG	3 cut(s)	48, 182, 282
MaeIII	GTNAC	3 cut(s)	349, 433, 466
MalI	GATC	4 cut(s)	135, 166, 286, 345
MboI	GATC	4 cut(s)	133, 164, 284, 343
MboII	GAAGA	5 cut(s)	215, 422, 464, 467, 507
MflI	RGATCY	3 cut(s)	164, 284, 343
MluCI	AATT	4 cut(s)	118, 220, 330, 444
MlyI	GAGTC	1 cut(s)	463
MmeI	TCCRAC	1 cut(s)	438
MnlI	CCTC	5 cut(s)	46, 240, 269, 396, 416
Mph1103I	ATGCAT	2 cut(s)	91, 212
MseI	TTAA	5 cut(s)	224, 375, 398, 486, 526
MslI	CAYNNNNRTG	1 cut(s)	251
MspI	CCGG	1 cut(s)	129
MspR9I	CCNGG	1 cut(s)	311
Mva1269I	GAATGC	2 cut(s)	85, 212
MvaI	CCWGG	1 cut(s)	311
MwoI	GCNNNNNNNGC	2 cut(s)	311, 425
NcoI	CCATGG	2 cut(s)	111, 198
NdeII	GATC	4 cut(s)	133, 164, 284, 343
NlaIII	CATG	3 cut(s)	115, 202, 294
NlaIV	GGNNCC	2 cut(s)	68, 371
NmuCI	GTSAC	2 cut(s)	433, 466
NsiI	ATGCAT	2 cut(s)	91, 212
NspI	RCATGY	1 cut(s)	294
PctI	GAATGC	2 cut(s)	85, 212
PflMI	CCANNNNNTGG	1 cut(s)	199
PkrI	GCNGC	2 cut(s)	34, 304
PleI	GAGTC	1 cut(s)	463
PpsI	GAGTC	1 cut(s)	463
Psp6I	CCWGG	1 cut(s)	309
PspFI	CCCAGC	1 cut(s)	365
PspGI	CCWGG	1 cut(s)	309
PspN4I	GGNNCC	2 cut(s)	68, 371
PspPI	GGNCC	3 cut(s)	44, 55, 313
PstI	CTGCAG	1 cut(s)	362
PstNI	CAGNNNCTG	1 cut(s)	326
PsuI	RGATCY	3 cut(s)	164, 284, 343
RsaI	GTAC	2 cut(s)	127, 371
RsaNI	GTAC	2 cut(s)	126, 370
RseI	CAYNNNNRTG	1 cut(s)	251
SaqAI	TTAA	5 cut(s)	224, 375, 398, 486, 526
SatI	GCNGC	2 cut(s)	33, 303
Sau3AI	GATC	4 cut(s)	133, 164, 284, 343
Sau96I	GGNCC	3 cut(s)	44, 55, 313
SchI	GAGTC	1 cut(s)	463
ScrFI	CCNGG	1 cut(s)	311
SetI	ASST	5 cut(s)	57, 375, 388, 427, 483
SfcI	CTRYAG	1 cut(s)	358
SinI	GGWCC	1 cut(s)	55
SmiMI	CAYNNNNRTG	1 cut(s)	251
Sse9I	AATT	4 cut(s)	118, 220, 330, 444
SsiI	CCGC	1 cut(s)	340
SspMI	CTAG	3 cut(s)	48, 182, 282
StyD4I	CCNGG	1 cut(s)	309
StyI	CCWWGG	2 cut(s)	111, 198
TaqII	GACCGA	1 cut(s)	222
TasI	AATT	4 cut(s)	118, 220, 330, 444
Tru1I	TTAA	5 cut(s)	224, 375, 398, 486, 526
Tru9I	TTAA	5 cut(s)	224, 375, 398, 486, 526
TscAI	CASTG	1 cut(s)	367
TseFI	GTSAC	2 cut(s)	433, 466
TseI	GCWGC	2 cut(s)	32, 302
Tsp45I	GTSAC	2 cut(s)	433, 466
TspRI	CASTG	1 cut(s)	367
Van91I	CCANNNNNTGG	1 cut(s)	199
VpaK11BI	GGWCC	1 cut(s)	55
XapI	RAATTY	3 cut(s)	118, 220, 330
XceI	RCATGY	1 cut(s)	294
XspI	CTAG	3 cut(s)	48, 182, 282
Zsp2I	ATGCAT	2 cut(s)	91, 212

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