Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2D

Orthogroup ID

OG0001968

Physical Location & Seq

Genomic Coordinates Forward (+)

24892273 .. 24893884

Gene Structure 1612 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2DG243800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 399 bp

ATGCTGTTGTTTGGTGCCTATGTAGCAAATGCGGTTGATTATGCATGCACACCTGAAGAAGTACAGCAGCATTTCGAATCATGTGGCACAGTTAACAGAGTGACTATACTGACAGATAAATTTGGCCAACCAAAGGGTTTTGCCTATGTGGAATTCCTTGAAACAGAAGCTGTTCAAAAGGCTCTTCTTCTGAATGAATCTGAGTTGCATGGTCGGCAATTGAAGGTTTTGCCTAAAAGGACCAATGTTCCTGGATATAAGCAATTCCGCCCTAGACGTTTCAATCCGTATATGGGTTACTGCATCAGGAGGCCTTATGTACCTCCTTACTTCTATTCGCCCTATGGATATGGGAAAGTTCCCAGGTTCAGAAGTCCAGCACAATACATGCCCTACTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003727 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005737 GO:0005773 GO:0005774 GO:0008143 GO:0016020 GO:0016604 GO:0016607 GO:0031090 GO:0031974 GO:0031981 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043621 GO:0044422 GO:0044424 GO:0044428 GO:0044437 GO:0044444 GO:0044446 GO:0044451 GO:0044464 GO:0070013 GO:0070717 GO:0097159 GO:0098588 GO:0098805 GO:1901363

KEGG Pathways

Metabolic & Signaling

ko03015 ko05164 map03015 map05164

Pfam Domains

Protein Families

RRM_1

Protein Analysis

132

Amino Acids

15.38

Weight (kDa)

9.38

Isoelectric Point (pI)

67.14

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	13 - 75	5.4e-14	RNA recognition motif

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: OG0001968)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G10350 AT5G10350 AT5G10350 AT5G10350 AT5G10350 AT5G10350 AT5G65260
fragaria_vesca	FvH4_1g20430 FvH4_1g20430 FvH4_1g20440 FvH4_1g20440
malus_domestica	MD00G1037000.v1.1 MD01G1034000.v1.1 MD01G1034100.v1.1
prunus_persica	Prupe.6G191400_v2.0.a1 Prupe.6G191400_v2.0.a1 Prupe.6G191400_v2.0.a1
pyrus_communis	pycom01g06120 pycom15g28270
rosa_chinensis	RchiOBHm_Chr2g0112681 RchiOBHm_Chr2g0112701 RchiOBHm_Chr2g0112711
rosa_laevigata	RLG00000018002 RLG00000018003
rosa_multiflora	Rmu_co8049960.1_g000001 Rmu_sc0001708.1_g000046 Rmu_sc0001708.1_g000047 Rmu_sc0037397.1_g000001
rosa_roxburghii	Rroxscaffold_2G00131230 Rroxscaffold_2G00131240 Rroxscaffold_7G00188180
rosa_rugosa	Rorug02G0181900
rosa_samantha	Rh2AG236400 Rh2BG249200 Rh2BG249300 Rh2CG240200 Rh2CG240300 Rh2CG240400 Rh2DG243700 Rh2DG243800 Rh2DG243900 Rh3BG013000 Rh5BG229700
rosa_wichuraiana	Rw2G018260 Rw2G018270

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	14
AciI	CCGC	2 cut(s)	32, 268
AcoI	YGGCCR	1 cut(s)	124
AcsI	RAATTY	2 cut(s)	119, 152
AcuI	CTGAAG	1 cut(s)	75
AfaI	GTAC	2 cut(s)	63, 321
AfiI	CCNNNNNNNGG	2 cut(s)	133, 293
AgsI	TTSAA	4 cut(s)	161, 176, 223, 283
AjnI	CCWGG	2 cut(s)	250, 362
AluBI	AGCT	1 cut(s)	170
AluI	AGCT	1 cut(s)	170
AlwNI	CAGNNNCTG	1 cut(s)	170
AoxI	GGCC	2 cut(s)	124, 311
ApeKI	GCWGC	1 cut(s)	67
ApoI	RAATTY	2 cut(s)	119, 152
Asp700I	GAANNNNTTC	1 cut(s)	171
AspS9I	GGNCC	1 cut(s)	240
AsuII	TTCGAA	1 cut(s)	75
AvaII	GGWCC	1 cut(s)	240
BalI	TGGCCA	1 cut(s)	126
BanI	GGYRCC	1 cut(s)	14
BbvI	GCAGC	1 cut(s)	79
BciT130I	CCWGG	2 cut(s)	252, 364
BfaI	CTAG	2 cut(s)	273, 397
BisI	GCNGC	1 cut(s)	68
BlsI	GCNGC	1 cut(s)	69
Bme1390I	CCNGG	2 cut(s)	252, 364
Bme18I	GGWCC	1 cut(s)	240
BmgT120I	GGNCC	1 cut(s)	240
BmiI	GGNNCC	1 cut(s)	16
BmrFI	CCNGG	2 cut(s)	252, 364
BmsI	GCATC	1 cut(s)	312
Bpu14I	TTCGAA	1 cut(s)	75
BsaJI	CCNNGG	1 cut(s)	362
Bsc4I	CCNNNNNNNGG	2 cut(s)	133, 293
BseBI	CCWGG	2 cut(s)	252, 364
BseDI	CCNNGG	1 cut(s)	362
BseLI	CCNNNNNNNGG	2 cut(s)	133, 293
BseMII	CTCAG	1 cut(s)	192
BseXI	GCAGC	1 cut(s)	79
BshFI	GGCC	2 cut(s)	126, 313
BshNI	GGYRCC	1 cut(s)	14
BslI	CCNNNNNNNGG	2 cut(s)	133, 293
BsnI	GGCC	2 cut(s)	126, 313
Bsp119I	TTCGAA	1 cut(s)	75
BspACI	CCGC	2 cut(s)	32, 268
BspANI	GGCC	2 cut(s)	126, 313
BspCNI	CTCAG	1 cut(s)	193
BspLI	GGNNCC	1 cut(s)	16
BspQI	GCTCTTC	1 cut(s)	189
BspT104I	TTCGAA	1 cut(s)	75
BspT107I	GGYRCC	1 cut(s)	14
BssECI	CCNNGG	1 cut(s)	362
Bst2UI	CCWGG	2 cut(s)	252, 364
Bst4CI	ACNGT	1 cut(s)	91
Bst6I	CTCTTC	1 cut(s)	189
BstBI	TTCGAA	1 cut(s)	75
BstC8I	GCNNGC	1 cut(s)	46
BstDEI	CTNAG	1 cut(s)	201
BstMWI	GCNNNNNNNGC	2 cut(s)	23, 214
BstNI	CCWGG	2 cut(s)	252, 364
BstNSI	RCATGY	2 cut(s)	48, 391
BstSCI	CCNGG	2 cut(s)	250, 362
BstV1I	GCAGC	1 cut(s)	79
BsuRI	GGCC	2 cut(s)	126, 313
Cac8I	GCNNGC	1 cut(s)	46
CaiI	CAGNNNCTG	1 cut(s)	170
Cfr13I	GGNCC	1 cut(s)	240
Csp6I	GTAC	2 cut(s)	62, 320
CviAII	CATG	4 cut(s)	45, 81, 209, 388
CviJI	RGCY	4 cut(s)	126, 170, 182, 313
CviKI_1	RGCY	4 cut(s)	126, 170, 182, 313
CviQI	GTAC	2 cut(s)	62, 320
DdeI	CTNAG	1 cut(s)	201
EaeI	YGGCCR	1 cut(s)	124
Eam1104I	CTCTTC	1 cut(s)	189
EarI	CTCTTC	1 cut(s)	189
EciI	GGCGGA	1 cut(s)	257
Eco147I	AGGCCT	1 cut(s)	313
Eco47I	GGWCC	1 cut(s)	240
Eco57I	CTGAAG	1 cut(s)	75
EcoRI	GAATTC	1 cut(s)	152
EcoRII	CCWGG	2 cut(s)	250, 362
EcoT22I	ATGCAT	1 cut(s)	46
FaeI	CATG	4 cut(s)	48, 84, 212, 391
FatI	CATG	4 cut(s)	44, 80, 208, 387
Fnu4HI	GCNGC	1 cut(s)	68
Fsp4HI	GCNGC	1 cut(s)	68
FspBI	CTAG	2 cut(s)	273, 397
GluI	GCNGC	1 cut(s)	68
HaeIII	GGCC	2 cut(s)	126, 313
Hin1II	CATG	4 cut(s)	48, 84, 212, 391
HincII	GTYRAC	1 cut(s)	94
HindII	GTYRAC	1 cut(s)	94
HinfI	GANTC	2 cut(s)	77, 197
HpaI	GTTAAC	1 cut(s)	94
Hpy166II	GTNNAC	1 cut(s)	94
Hpy188I	TCNGA	3 cut(s)	192, 202, 371
Hpy188III	TCNNGA	1 cut(s)	307
Hpy8I	GTNNAC	1 cut(s)	94
HpyAV	CCTTC	1 cut(s)	217
HpyCH4III	ACNGT	1 cut(s)	91
HpyCH4IV	ACGT	1 cut(s)	277
HpyCH4V	TGCA	4 cut(s)	44, 48, 208, 303
HpyF10VI	GCNNNNNNNGC	2 cut(s)	23, 214
HpyF3I	CTNAG	1 cut(s)	201
HpySE526I	ACGT	1 cut(s)	277
Hsp92II	CATG	4 cut(s)	48, 84, 212, 391
KspAI	GTTAAC	1 cut(s)	94
LguI	GCTCTTC	1 cut(s)	189
LpnPI	CCDG	7 cut(s)	66, 237, 264, 292, 349, 376, 390
Lsp1109I	GCAGC	1 cut(s)	79
LweI	GCATC	1 cut(s)	312
MaeI	CTAG	2 cut(s)	273, 397
MaeII	ACGT	1 cut(s)	277
MaeIII	GTNAC	2 cut(s)	100, 296
MboII	GAAGA	3 cut(s)	68, 176, 179
MfeI	CAATTG	1 cut(s)	218
MlsI	TGGCCA	1 cut(s)	126
MluCI	AATT	4 cut(s)	119, 152, 218, 263
MluNI	TGGCCA	1 cut(s)	126
MnlI	CCTC	2 cut(s)	303, 333
Mox20I	TGGCCA	1 cut(s)	126
Mph1103I	ATGCAT	1 cut(s)	46
MroXI	GAANNNNTTC	1 cut(s)	171
MscI	TGGCCA	1 cut(s)	126
MseI	TTAA	1 cut(s)	93
Msp20I	TGGCCA	1 cut(s)	126
MspR9I	CCNGG	2 cut(s)	252, 364
MunI	CAATTG	1 cut(s)	218
MvaI	CCWGG	2 cut(s)	252, 364
MwoI	GCNNNNNNNGC	2 cut(s)	23, 214
NlaIII	CATG	4 cut(s)	48, 84, 212, 391
NlaIV	GGNNCC	1 cut(s)	16
NmuCI	GTSAC	1 cut(s)	100
NsiI	ATGCAT	1 cut(s)	46
NspI	RCATGY	2 cut(s)	48, 391
NspV	TTCGAA	1 cut(s)	75
PaeI	GCATGC	1 cut(s)	48
PceI	AGGCCT	1 cut(s)	313
PciSI	GCTCTTC	1 cut(s)	189
PdmI	GAANNNNTTC	1 cut(s)	171
PfeI	GAWTC	2 cut(s)	77, 197
PfoI	TCCNGGA	1 cut(s)	250
PkrI	GCNGC	1 cut(s)	69
Psp6I	CCWGG	2 cut(s)	250, 362
PspGI	CCWGG	2 cut(s)	250, 362
PspN4I	GGNNCC	1 cut(s)	16
PspPI	GGNCC	1 cut(s)	240
PstNI	CAGNNNCTG	1 cut(s)	170
RsaI	GTAC	2 cut(s)	63, 321
RsaNI	GTAC	2 cut(s)	62, 320
SapI	GCTCTTC	1 cut(s)	189
SaqAI	TTAA	1 cut(s)	93
SatI	GCNGC	1 cut(s)	68
Sau96I	GGNCC	1 cut(s)	240
ScrFI	CCNGG	2 cut(s)	252, 364
SetI	ASST	6 cut(s)	55, 172, 228, 280, 325, 368
SfaNI	GCATC	1 cut(s)	312
SfuI	TTCGAA	1 cut(s)	75
SinI	GGWCC	1 cut(s)	240
SphI	GCATGC	1 cut(s)	48
Sse9I	AATT	4 cut(s)	119, 152, 218, 263
SseBI	AGGCCT	1 cut(s)	313
SsiI	CCGC	2 cut(s)	32, 268
SspMI	CTAG	2 cut(s)	273, 397
StuI	AGGCCT	1 cut(s)	313
StyD4I	CCNGG	2 cut(s)	250, 362
TaaI	ACNGT	1 cut(s)	91
TaiI	ACGT	1 cut(s)	280
TaqI	TCGA	1 cut(s)	75
TasI	AATT	4 cut(s)	119, 152, 218, 263
TatI	WGTACW	1 cut(s)	61
TfiI	GAWTC	2 cut(s)	77, 197
Tru1I	TTAA	1 cut(s)	93
Tru9I	TTAA	1 cut(s)	93
TseFI	GTSAC	1 cut(s)	100
TseI	GCWGC	1 cut(s)	67
Tsp45I	GTSAC	1 cut(s)	100
TspDTI	ATGAA	1 cut(s)	210
TspGWI	ACGGA	1 cut(s)	276
VpaK11BI	GGWCC	1 cut(s)	240
XapI	RAATTY	2 cut(s)	119, 152
XceI	RCATGY	2 cut(s)	48, 391
XmnI	GAANNNNTTC	1 cut(s)	171
XspI	CTAG	2 cut(s)	273, 397
Zsp2I	ATGCAT	1 cut(s)	46

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