Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000006

Orthogroup ID

OG0011573

Physical Location & Seq

Genomic Coordinates Reverse (-)

42966142 .. 42969063

Gene Structure 2922 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_6G00421950.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 558 bp

ATGGCTACCAGCACAGACGATCTGAAGTTGCATCGGTGGGCGGTATGGGCGATCCCACCTGATAGCATTTGTAAGAGAGTCAAAACGGTGATGGAGGCCCTCCGGAAGGAATTTGGTGGGCCTGACGTTGAGCCCCACATCACTGTTGCAGGGTCCATTCTCTTCAATCGCTCAGAGGCCATTGAAAAGTTCGTCGGTGCATGTAATGAGATAAACCCCTATGTTTCTCAAGTCGATCAACTTGAGACTAGCAAATTCTATTTCCAATGTGTTTCCCTTGTCTTTCAGACAGATCATCAGTTGACACAGGAAACTGGACTCTTGGCTGCGCGTATGTATTGCAATAGTGCTAATATGCCACATTTGAGCTTGTTCTATGGGGATCTTACAGATGAAGAGAAGAAAAGAGCAGTACAAATAGTGAAGAGTATCGATGAGGGACTTTGTACCATTAGCTTCACCATAAATCGGATGCAATTGTACAGGGTTAACTTCGAAGATAAAACTCAAAAATCTTGGGAGATGGTTTCTGAATGCAACCTTCGACCTAAAATCTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000394 GO:0003674 GO:0003824 GO:0004112 GO:0004113 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006139 GO:0006388 GO:0006396 GO:0006399 GO:0006725 GO:0006753 GO:0006793 GO:0006796 GO:0006807 GO:0008033 GO:0008081 GO:0008150 GO:0008152 GO:0008380 GO:0009117 GO:0009187 GO:0009987 GO:0010467 GO:0016070 GO:0016787 GO:0016788 GO:0019637 GO:0034470 GO:0034641 GO:0034660 GO:0042578 GO:0043170 GO:0044237 GO:0044238 GO:0044281 GO:0044424 GO:0044464 GO:0046483 GO:0055086 GO:0071704 GO:0090304 GO:1901360

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

2_5_RNA_ligase2 CPDase

Protein Analysis

185

Amino Acids

21.18

Weight (kDa)

5.83

Isoelectric Point (pI)

41.84

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
CPDase	PF07823	14 - 174	1.6e-09	Cyclic phosphodiesterase-like 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

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Orthologous Genes (Group: OG0011573)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_6g07330
rosa_chinensis	RchiOBHm_Chr3g0456941 RchiOBHm_Chr3g0457361
rosa_laevigata	RLG00000025232 RLG00000025262
rosa_multiflora	Rmu_sc0005442.1_g000007 Rmu_sc0011220.1_g000001 Rmu_sc0016008.1_g000002
rosa_roxburghii	Rroxscaffold_6G00421950 Rroxscaffold_6G00422350
rosa_rugosa	Rorug03G0017500 Rorug03G0020100
rosa_samantha	Rh3AG077500 Rh3AG080300 Rh3BG079400 Rh3BG082100 Rh3CG079300 Rh3CG082400 Rh3DG081100
rosa_wichuraiana	Rw3G006640

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	331
AccIII	TCCGGA	1 cut(s)	102
AciI	CCGC	1 cut(s)	41
AclWI	GGATC	2 cut(s)	46, 390
AcsI	RAATTY	2 cut(s)	110, 254
AcuI	CTGAAG	1 cut(s)	44
AfaI	GTAC	3 cut(s)	414, 448, 482
AfiI	CCNNNNNNNGG	2 cut(s)	106, 468
AgsI	TTSAA	2 cut(s)	166, 185
AluBI	AGCT	2 cut(s)	369, 456
AluI	AGCT	2 cut(s)	369, 456
Alw26I	GTCTC	1 cut(s)	239
AlwI	GGATC	2 cut(s)	46, 390
Aor13HI	TCCGGA	1 cut(s)	102
AoxI	GGCC	3 cut(s)	96, 119, 177
ApeKI	GCWGC	1 cut(s)	326
ApoI	RAATTY	2 cut(s)	110, 254
AspLEI	GCGC	1 cut(s)	331
AspS9I	GGNCC	3 cut(s)	97, 119, 153
AsuHPI	GGTGA	2 cut(s)	100, 451
AsuII	TTCGAA	1 cut(s)	495
AvaII	GGWCC	1 cut(s)	153
BanII	GRGCYC	1 cut(s)	135
BbvI	GCAGC	1 cut(s)	313
BccI	CCATC	2 cut(s)	85, 517
BcoDI	GTCTC	1 cut(s)	239
BfaI	CTAG	1 cut(s)	249
BisI	GCNGC	1 cut(s)	327
BlsI	GCNGC	1 cut(s)	328
Bme18I	GGWCC	1 cut(s)	153
BmgT120I	GGNCC	3 cut(s)	97, 119, 153
BmiI	GGNNCC	1 cut(s)	154
BmsI	GCATC	2 cut(s)	40, 462
Bpu14I	TTCGAA	1 cut(s)	495
BpuEI	CTTGAG	2 cut(s)	213, 263
Bsa29I	ATCGAT	1 cut(s)	432
BsaWI	WCCGGW	1 cut(s)	102
Bsc4I	CCNNNNNNNGG	2 cut(s)	106, 468
Bse1I	ACTGG	1 cut(s)	319
BseAI	TCCGGA	1 cut(s)	102
BseCI	ATCGAT	1 cut(s)	432
BseGI	GGATG	1 cut(s)	477
BseLI	CCNNNNNNNGG	2 cut(s)	106, 468
BseMII	CTCAG	1 cut(s)	186
BseNI	ACTGG	1 cut(s)	319
BseXI	GCAGC	1 cut(s)	313
Bsh1236I	CGCG	1 cut(s)	331
BshFI	GGCC	3 cut(s)	98, 121, 179
BshVI	ATCGAT	1 cut(s)	432
BsiSI	CCGG	1 cut(s)	103
BslFI	GGGAC	1 cut(s)	453
BslI	CCNNNNNNNGG	2 cut(s)	106, 468
BsmAI	GTCTC	1 cut(s)	239
BsmFI	GGGAC	1 cut(s)	453
BsmI	GAATGC	1 cut(s)	539
BsnI	GGCC	3 cut(s)	98, 121, 179
Bsp119I	TTCGAA	1 cut(s)	495
Bsp1286I	GDGCHC	1 cut(s)	135
Bsp13I	TCCGGA	1 cut(s)	102
Bsp1407I	TGTACA	1 cut(s)	480
Bsp143I	GATC	5 cut(s)	19, 51, 235, 292, 382
BspACI	CCGC	1 cut(s)	41
BspANI	GGCC	3 cut(s)	98, 121, 179
BspCNI	CTCAG	1 cut(s)	185
BspDI	ATCGAT	1 cut(s)	432
BspEI	TCCGGA	1 cut(s)	102
BspFNI	CGCG	1 cut(s)	331
BspLI	GGNNCC	1 cut(s)	154
BspPI	GGATC	2 cut(s)	46, 390
BspT104I	TTCGAA	1 cut(s)	495
BsrGI	TGTACA	1 cut(s)	480
BsrI	ACTGG	1 cut(s)	319
BssMI	GATC	5 cut(s)	19, 51, 235, 292, 382
Bst4CI	ACNGT	2 cut(s)	88, 145
Bst6I	CTCTTC	3 cut(s)	167, 390, 419
BstAUI	TGTACA	1 cut(s)	480
BstBI	TTCGAA	1 cut(s)	495
BstDEI	CTNAG	1 cut(s)	172
BstENI	CCTNNNNNAGG	1 cut(s)	104
BstF5I	GGATG	1 cut(s)	477
BstFNI	CGCG	1 cut(s)	331
BstHHI	GCGC	1 cut(s)	331
BstKTI	GATC	5 cut(s)	22, 54, 238, 295, 385
BstMAI	GTCTC	1 cut(s)	239
BstMBI	GATC	5 cut(s)	19, 51, 235, 292, 382
BstMWI	GCNNNNNNNGC	1 cut(s)	47
BstNSI	RCATGY	1 cut(s)	204
BstUI	CGCG	1 cut(s)	331
BstV1I	GCAGC	1 cut(s)	313
BstX2I	RGATCY	1 cut(s)	382
BstYI	RGATCY	1 cut(s)	382
Bsu15I	ATCGAT	1 cut(s)	432
BsuRI	GGCC	3 cut(s)	98, 121, 179
BsuTUI	ATCGAT	1 cut(s)	432
BtsCI	GGATG	1 cut(s)	477
BtsIMutI	CAGTG	1 cut(s)	141
CfoI	GCGC	1 cut(s)	331
Cfr13I	GGNCC	3 cut(s)	97, 119, 153
ClaI	ATCGAT	1 cut(s)	432
Csp6I	GTAC	3 cut(s)	413, 447, 481
CviAII	CATG	1 cut(s)	201
CviJI	RGCY	8 cut(s)	5, 98, 121, 133, 179, 326, 369, 456
CviKI_1	RGCY	8 cut(s)	5, 98, 121, 133, 179, 326, 369, 456
CviQI	GTAC	3 cut(s)	413, 447, 481
DdeI	CTNAG	1 cut(s)	172
DpnI	GATC	5 cut(s)	21, 53, 237, 294, 384
DpnII	GATC	5 cut(s)	19, 51, 235, 292, 382
Eam1104I	CTCTTC	3 cut(s)	167, 390, 419
EarI	CTCTTC	3 cut(s)	167, 390, 419
Eco24I	GRGCYC	1 cut(s)	135
Eco47I	GGWCC	1 cut(s)	153
Eco57I	CTGAAG	1 cut(s)	44
EcoNI	CCTNNNNNAGG	1 cut(s)	104
EcoO109I	RGGNCCY	1 cut(s)	97
EcoT38I	GRGCYC	1 cut(s)	135
FaeI	CATG	1 cut(s)	204
FaiI	YATR	7 cut(s)	46, 202, 222, 335, 356, 378, 464
FaqI	GGGAC	1 cut(s)	453
FatI	CATG	1 cut(s)	200
Fnu4HI	GCNGC	1 cut(s)	327
FokI	GGATG	1 cut(s)	484
FriOI	GRGCYC	1 cut(s)	135
Fsp4HI	GCNGC	1 cut(s)	327
FspBI	CTAG	1 cut(s)	249
GlaI	GCGC	1 cut(s)	330
GluI	GCNGC	1 cut(s)	327
HaeIII	GGCC	3 cut(s)	98, 121, 179
HapII	CCGG	1 cut(s)	103
HhaI	GCGC	1 cut(s)	331
Hin1II	CATG	1 cut(s)	204
Hin6I	GCGC	1 cut(s)	329
HinP1I	GCGC	1 cut(s)	329
HincII	GTYRAC	2 cut(s)	303, 490
HindII	GTYRAC	2 cut(s)	303, 490
HinfI	GANTC	2 cut(s)	78, 318
HpaI	GTTAAC	1 cut(s)	490
HpaII	CCGG	1 cut(s)	103
HphI	GGTGA	2 cut(s)	100, 451
Hpy166II	GTNNAC	2 cut(s)	303, 490
Hpy188I	TCNGA	5 cut(s)	24, 175, 288, 471, 532
Hpy188III	TCNNGA	1 cut(s)	103
Hpy8I	GTNNAC	2 cut(s)	303, 490
Hpy99I	CGWCG	1 cut(s)	197
HpyAV	CCTTC	2 cut(s)	100, 551
HpyCH4III	ACNGT	2 cut(s)	88, 145
HpyCH4IV	ACGT	1 cut(s)	126
HpyCH4V	TGCA	6 cut(s)	31, 149, 200, 342, 475, 537
HpyF10VI	GCNNNNNNNGC	1 cut(s)	47
HpyF3I	CTNAG	1 cut(s)	172
HpySE526I	ACGT	1 cut(s)	126
Hsp92II	CATG	1 cut(s)	204
HspAI	GCGC	1 cut(s)	329
Kpn2I	TCCGGA	1 cut(s)	102
KspAI	GTTAAC	1 cut(s)	490
Kzo9I	GATC	5 cut(s)	19, 51, 235, 292, 382
LpnPI	CCDG	8 cut(s)	22, 72, 116, 135, 135, 293, 300, 469
Lsp1109I	GCAGC	1 cut(s)	313
LweI	GCATC	2 cut(s)	40, 462
MaeI	CTAG	1 cut(s)	249
MaeII	ACGT	1 cut(s)	126
MalI	GATC	5 cut(s)	21, 53, 237, 294, 384
MboI	GATC	5 cut(s)	19, 51, 235, 292, 382
MboII	GAAGA	5 cut(s)	154, 407, 412, 436, 509
MfeI	CAATTG	1 cut(s)	476
MflI	RGATCY	1 cut(s)	382
MhlI	GDGCHC	1 cut(s)	135
MluCI	AATT	3 cut(s)	110, 254, 476
MlyI	GAGTC	2 cut(s)	87, 312
MnlI	CCTC	4 cut(s)	88, 110, 169, 430
MroI	TCCGGA	1 cut(s)	102
MseI	TTAA	1 cut(s)	489
MspI	CCGG	1 cut(s)	103
MunI	CAATTG	1 cut(s)	476
Mva1269I	GAATGC	1 cut(s)	539
MvnI	CGCG	1 cut(s)	331
MwoI	GCNNNNNNNGC	1 cut(s)	47
NdeII	GATC	5 cut(s)	19, 51, 235, 292, 382
NlaIII	CATG	1 cut(s)	204
NlaIV	GGNNCC	1 cut(s)	154
NspI	RCATGY	1 cut(s)	204
NspV	TTCGAA	1 cut(s)	495
PctI	GAATGC	1 cut(s)	539
PkrI	GCNGC	1 cut(s)	328
PleI	GAGTC	2 cut(s)	86, 312
PpsI	GAGTC	2 cut(s)	86, 312
PspN4I	GGNNCC	1 cut(s)	154
PspPI	GGNCC	3 cut(s)	97, 119, 153
PsuI	RGATCY	1 cut(s)	382
RsaI	GTAC	3 cut(s)	414, 448, 482
RsaNI	GTAC	3 cut(s)	413, 447, 481
SaqAI	TTAA	1 cut(s)	489
SatI	GCNGC	1 cut(s)	327
Sau3AI	GATC	5 cut(s)	19, 51, 235, 292, 382
Sau96I	GGNCC	3 cut(s)	97, 119, 153
SchI	GAGTC	2 cut(s)	87, 312
SduI	GDGCHC	1 cut(s)	135
SetI	ASST	6 cut(s)	61, 129, 371, 458, 543, 550
SfaNI	GCATC	2 cut(s)	40, 462
SfuI	TTCGAA	1 cut(s)	495
SinI	GGWCC	1 cut(s)	153
SmlI	CTYRAG	2 cut(s)	228, 242
SmoI	CTYRAG	2 cut(s)	228, 242
Sse9I	AATT	3 cut(s)	110, 254, 476
SsiI	CCGC	1 cut(s)	41
SspMI	CTAG	1 cut(s)	249
TaaI	ACNGT	2 cut(s)	88, 145
TaiI	ACGT	1 cut(s)	129
TaqI	TCGA	4 cut(s)	234, 432, 495, 544
TasI	AATT	3 cut(s)	110, 254, 476
TatI	WGTACW	2 cut(s)	412, 480
Tru1I	TTAA	1 cut(s)	489
Tru9I	TTAA	1 cut(s)	489
TscAI	CASTG	1 cut(s)	148
TseI	GCWGC	1 cut(s)	326
TspDTI	ATGAA	1 cut(s)	408
TspRI	CASTG	1 cut(s)	148
VpaK11BI	GGWCC	1 cut(s)	153
XagI	CCTNNNNNAGG	1 cut(s)	104
XapI	RAATTY	2 cut(s)	110, 254
XceI	RCATGY	1 cut(s)	204
XspI	CTAG	1 cut(s)	249

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