Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5C

Orthogroup ID

OG0017770

Physical Location & Seq

Genomic Coordinates Forward (+)

78834197 .. 78835067

Gene Structure 871 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5CG562000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 384 bp

ATGGCTGTCGTATTTCCAAAGGGTAGACTTTGGAGGACCATGGGAATCTCTCGTAATGGCAAGCTCTATATCTCCATTGAGGAAGTTTTGTATTTGGTTGAAATAGGGGATTTGCTTCTCTTGGATGGTAGTGATACTAGTATTTCCTTGGAAGATATATATACAAAGGTTTCAGATGGAAAGAATAAGTTCTTGTTGGAGGAATTTAGAGCTTATAGGCAACTCAGATACCTTGGGTACATTGTTGCGAGACATGGTATTCCCTGGTCTAGTAAGGGTGTAAAGACTAACTGTGAATCTGTTTCTTCTCAAGTTTGTCCTGAAGCTGAAGAGATTAGGTCTGTCAATGGATTGTTCAATGGGATACAGATTAATGATACTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000213 GO:0000214 GO:0000278 GO:0000281 GO:0000379 GO:0000394 GO:0000910 GO:0003006 GO:0003674 GO:0003824 GO:0004518 GO:0004519 GO:0004521 GO:0004540 GO:0004549 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006139 GO:0006388 GO:0006396 GO:0006399 GO:0006725 GO:0006807 GO:0007049 GO:0007275 GO:0008033 GO:0008150 GO:0008152 GO:0008356 GO:0008380 GO:0009790 GO:0009791 GO:0009793 GO:0009987 GO:0010069 GO:0010070 GO:0010154 GO:0010467 GO:0016070 GO:0016787 GO:0016788 GO:0016892 GO:0016894 GO:0022402 GO:0022414 GO:0032501 GO:0032502 GO:0032991 GO:0034470 GO:0034641 GO:0034660 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0046483 GO:0048316 GO:0048608 GO:0048731 GO:0048856 GO:0051301 GO:0061458 GO:0061640 GO:0071704 GO:0090304 GO:0090305 GO:0090501 GO:0090502 GO:0140098 GO:0140101 GO:1901360 GO:1902494 GO:1902555 GO:1903047 GO:1905348

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

tRNA_int_endo tRNA_int_endo_N

Protein Analysis

127

Amino Acids

14.34

Weight (kDa)

5.84

Isoelectric Point (pI)

31.93

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
tRNA_int_end_N2	PF12928	2 - 40	5.8e-10	tRNA-splicing endonuclease subunit sen54 N-term

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0017770)

Species	Orthologous Gene IDs
rosa_chinensis	RchiOBHm_Chr1g0361791
rosa_multiflora	Rmu_sc0000206.1_g000034 Rmu_sc0001861.1_g000057 Rmu_sc0002063.1_g000008
rosa_rugosa	Rorug03G0189800 Rorug04G0209300
rosa_samantha	Rh4BG023500 Rh5AG503400 Rh5BG538100 Rh5CG562000
rosa_wichuraiana	Rw1G021270 Rw6G018810

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	25
AcsI	RAATTY	1 cut(s)	203
AcuI	CTGAAG	2 cut(s)	342, 348
AfaI	GTAC	1 cut(s)	239
AgsI	TTSAA	2 cut(s)	101, 358
AhlI	ACTAGT	1 cut(s)	137
AjnI	CCWGG	1 cut(s)	263
AluBI	AGCT	3 cut(s)	64, 212, 326
AluI	AGCT	3 cut(s)	64, 212, 326
Alw26I	GTCTC	1 cut(s)	244
ApoI	RAATTY	1 cut(s)	203
AseI	ATTAAT	1 cut(s)	372
Asp700I	GAANNNNTTC	1 cut(s)	188
AspS9I	GGNCC	1 cut(s)	36
AvaII	GGWCC	1 cut(s)	36
BccI	CCATC	2 cut(s)	119, 170
BciT130I	CCWGG	1 cut(s)	265
BciVI	GTATCC	1 cut(s)	357
BcoDI	GTCTC	1 cut(s)	244
BcuI	ACTAGT	1 cut(s)	137
BfaI	CTAG	2 cut(s)	138, 270
BfuI	GTATCC	1 cut(s)	357
Bme1390I	CCNGG	1 cut(s)	265
Bme18I	GGWCC	1 cut(s)	36
BmgT120I	GGNCC	1 cut(s)	36
BmrFI	CCNGG	1 cut(s)	265
BpuEI	CTTGAG	1 cut(s)	294
BsaJI	CCNNGG	4 cut(s)	39, 147, 232, 263
BseBI	CCWGG	1 cut(s)	265
BseDI	CCNNGG	4 cut(s)	39, 147, 232, 263
BseGI	GGATG	1 cut(s)	130
BseMII	CTCAG	1 cut(s)	238
BsmAI	GTCTC	1 cut(s)	244
Bsp19I	CCATGG	1 cut(s)	39
BspCNI	CTCAG	1 cut(s)	237
BssECI	CCNNGG	4 cut(s)	39, 147, 232, 263
BssT1I	CCWWGG	3 cut(s)	39, 147, 232
Bst2UI	CCWGG	1 cut(s)	265
Bst4CI	ACNGT	1 cut(s)	293
Bst6I	CTCTTC	1 cut(s)	324
BstC8I	GCNNGC	1 cut(s)	62
BstDEI	CTNAG	1 cut(s)	224
BstDSI	CCRYGG	1 cut(s)	39
BstF5I	GGATG	1 cut(s)	130
BstMAI	GTCTC	1 cut(s)	244
BstNI	CCWGG	1 cut(s)	265
BstSCI	CCNGG	1 cut(s)	263
BsuI	GTATCC	1 cut(s)	357
BtgI	CCRYGG	1 cut(s)	39
BtsCI	GGATG	1 cut(s)	130
Cac8I	GCNNGC	1 cut(s)	62
Cfr13I	GGNCC	1 cut(s)	36
Csp6I	GTAC	1 cut(s)	238
CviAII	CATG	2 cut(s)	40, 254
CviJI	RGCY	4 cut(s)	5, 64, 212, 326
CviKI_1	RGCY	4 cut(s)	5, 64, 212, 326
CviQI	GTAC	1 cut(s)	238
DdeI	CTNAG	1 cut(s)	224
Eam1104I	CTCTTC	1 cut(s)	324
EarI	CTCTTC	1 cut(s)	324
Eco130I	CCWWGG	3 cut(s)	39, 147, 232
Eco47I	GGWCC	1 cut(s)	36
Eco57I	CTGAAG	2 cut(s)	342, 348
EcoRII	CCWGG	1 cut(s)	263
EcoT14I	CCWWGG	3 cut(s)	39, 147, 232
ErhI	CCWWGG	3 cut(s)	39, 147, 232
FaeI	CATG	2 cut(s)	43, 257
FaiI	YATR	7 cut(s)	41, 69, 158, 160, 162, 216, 255
FatI	CATG	2 cut(s)	39, 253
FblI	GTMKAC	1 cut(s)	25
FokI	GGATG	1 cut(s)	137
FspBI	CTAG	2 cut(s)	138, 270
Hin1II	CATG	2 cut(s)	43, 257
HinfI	GANTC	2 cut(s)	45, 296
Hpy166II	GTNNAC	1 cut(s)	26
Hpy188I	TCNGA	2 cut(s)	175, 227
Hpy188III	TCNNGA	1 cut(s)	320
Hpy8I	GTNNAC	1 cut(s)	26
HpyCH4III	ACNGT	1 cut(s)	293
HpyF3I	CTNAG	1 cut(s)	224
Hsp92II	CATG	2 cut(s)	43, 257
LpnPI	CCDG	3 cut(s)	250, 277, 333
MaeI	CTAG	2 cut(s)	138, 270
MboII	GAAGA	3 cut(s)	164, 297, 341
MluCI	AATT	1 cut(s)	203
MmeI	TCCRAC	1 cut(s)	177
MnlI	CCTC	3 cut(s)	27, 73, 193
MroXI	GAANNNNTTC	1 cut(s)	188
MseI	TTAA	1 cut(s)	372
MspR9I	CCNGG	1 cut(s)	265
MvaI	CCWGG	1 cut(s)	265
NcoI	CCATGG	1 cut(s)	39
NlaIII	CATG	2 cut(s)	43, 257
PdmI	GAANNNNTTC	1 cut(s)	188
PfeI	GAWTC	2 cut(s)	45, 296
PshBI	ATTAAT	1 cut(s)	372
Psp6I	CCWGG	1 cut(s)	263
PspGI	CCWGG	1 cut(s)	263
PspPI	GGNCC	1 cut(s)	36
RsaI	GTAC	1 cut(s)	239
RsaNI	GTAC	1 cut(s)	238
SaqAI	TTAA	1 cut(s)	372
Sau96I	GGNCC	1 cut(s)	36
ScrFI	CCNGG	1 cut(s)	265
SetI	ASST	6 cut(s)	66, 171, 214, 234, 328, 341
SinI	GGWCC	1 cut(s)	36
SmlI	CTYRAG	1 cut(s)	309
SmoI	CTYRAG	1 cut(s)	309
SpeI	ACTAGT	1 cut(s)	137
Sse9I	AATT	1 cut(s)	203
SspMI	CTAG	2 cut(s)	138, 270
StyD4I	CCNGG	1 cut(s)	263
StyI	CCWWGG	3 cut(s)	39, 147, 232
TaaI	ACNGT	1 cut(s)	293
TasI	AATT	1 cut(s)	203
TfiI	GAWTC	2 cut(s)	45, 296
Tru1I	TTAA	1 cut(s)	372
Tru9I	TTAA	1 cut(s)	372
VpaK11BI	GGWCC	1 cut(s)	36
VspI	ATTAAT	1 cut(s)	372
XapI	RAATTY	1 cut(s)	203
XmiI	GTMKAC	1 cut(s)	25
XmnI	GAANNNNTTC	1 cut(s)	188
XspI	CTAG	2 cut(s)	138, 270

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