Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4B

Orthogroup ID

OG0017770

Physical Location & Seq

Genomic Coordinates Forward (+)

3704763 .. 3706184

Gene Structure 1422 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4BG023500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 471 bp

ATGGCAGAGGATGAAGTGATGAGGAGGTGGGCTTTTGCTACTCTAATTTGTAACATTAGAGAGCACTTGATTGTAGCTGAAAAATTAACGATTATGAATGAAGAATGTTTAGATGAAGAATATATCAATGACTATGATGAAGAAGAAGAGGAAAACCACTATGCATCTCGTGCCATATCCAAGATGCAACCCAGGAGGTCTAGTGTATCCAAGGCTTACTGGGATGATGAGATGGGCATGGCTGTCATATTTCCAAAGGGTAGAATTTGGAGGACCATGGGAATCTCTCGTAATGGCAAGCTCTATATCTCCATTGAGGAAGTTTTGTATTTGGTTGAAATAGGGGCTTTGCTTCTCTTGGATGGTAGTGATACTAGTATTTCCTTGGAAGATATATATACAAAGGTTTCAGATGGAAAGAATAAGTTAATGATACTTGACCTTTTGGTTACTTGTTTGGTAGCAATATAG

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

156

Amino Acids

17.98

Weight (kDa)

4.59

Isoelectric Point (pI)

60.24

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
tRNA_int_end_N2	PF12928	65 - 119	7.1e-15	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

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Align Labels (Cladogram)

Image

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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)
AcsI	RAATTY	1 cut(s)	264
AgsI	TTSAA	1 cut(s)	338
AhlI	ACTAGT	1 cut(s)	374
AjnI	CCWGG	1 cut(s)	191
AluBI	AGCT	2 cut(s)	77, 301
AluI	AGCT	2 cut(s)	77, 301
Alw21I	GWGCWC	1 cut(s)	66
ApoI	RAATTY	1 cut(s)	264
AspS9I	GGNCC	1 cut(s)	273
AvaII	GGWCC	1 cut(s)	273
BauI	CACGAG	1 cut(s)	168
Bbv12I	GWGCWC	1 cut(s)	66
BccI	CCATC	3 cut(s)	226, 356, 407
BciT130I	CCWGG	1 cut(s)	193
BciVI	GTATCC	1 cut(s)	217
BcuI	ACTAGT	1 cut(s)	374
BfaI	CTAG	2 cut(s)	201, 375
BfuI	GTATCC	1 cut(s)	217
Bme1390I	CCNGG	1 cut(s)	193
Bme18I	GGWCC	1 cut(s)	273
BmgT120I	GGNCC	1 cut(s)	273
BmrFI	CCNGG	1 cut(s)	193
BmrI	ACTGGG	1 cut(s)	229
BmsI	GCATC	2 cut(s)	173, 174
BmuI	ACTGGG	1 cut(s)	229
BsaJI	CCNNGG	4 cut(s)	191, 210, 276, 384
BsaXI	ACNNNNNCTCC	2 cut(s)	187, 217
Bse1I	ACTGG	1 cut(s)	224
BseBI	CCWGG	1 cut(s)	193
BseDI	CCNNGG	4 cut(s)	191, 210, 276, 384
BseGI	GGATG	3 cut(s)	16, 229, 367
BseNI	ACTGG	1 cut(s)	224
BseRI	GAGGAG	1 cut(s)	37
BsiHKAI	GWGCWC	1 cut(s)	66
Bsp1286I	GDGCHC	1 cut(s)	66
Bsp19I	CCATGG	1 cut(s)	276
BsrI	ACTGG	1 cut(s)	224
BssECI	CCNNGG	4 cut(s)	191, 210, 276, 384
BssSI	CACGAG	1 cut(s)	168
BssT1I	CCWWGG	3 cut(s)	210, 276, 384
Bst2BI	CACGAG	1 cut(s)	168
Bst2UI	CCWGG	1 cut(s)	193
Bst6I	CTCTTC	1 cut(s)	141
BstAPI	GCANNNNNTGC	1 cut(s)	170
BstC8I	GCNNGC	1 cut(s)	299
BstDSI	CCRYGG	1 cut(s)	276
BstF5I	GGATG	3 cut(s)	16, 229, 367
BstMWI	GCNNNNNNNGC	1 cut(s)	170
BstNI	CCWGG	1 cut(s)	193
BstSCI	CCNGG	1 cut(s)	191
BsuI	GTATCC	1 cut(s)	217
BtgI	CCRYGG	1 cut(s)	276
BtsCI	GGATG	3 cut(s)	16, 229, 367
Cac8I	GCNNGC	1 cut(s)	299
Cfr13I	GGNCC	1 cut(s)	273
CviAII	CATG	2 cut(s)	238, 277
CviJI	RGCY	6 cut(s)	32, 77, 215, 242, 301, 347
CviKI_1	RGCY	6 cut(s)	32, 77, 215, 242, 301, 347
Eam1104I	CTCTTC	1 cut(s)	141
EarI	CTCTTC	1 cut(s)	141
Eco130I	CCWWGG	3 cut(s)	210, 276, 384
Eco47I	GGWCC	1 cut(s)	273
EcoRII	CCWGG	1 cut(s)	191
EcoT14I	CCWWGG	3 cut(s)	210, 276, 384
EcoT22I	ATGCAT	1 cut(s)	166
ErhI	CCWWGG	3 cut(s)	210, 276, 384
FaeI	CATG	2 cut(s)	241, 280
FatI	CATG	2 cut(s)	237, 276
FokI	GGATG	3 cut(s)	23, 236, 374
FspBI	CTAG	2 cut(s)	201, 375
Hin1II	CATG	2 cut(s)	241, 280
HinfI	GANTC	1 cut(s)	282
Hpy188I	TCNGA	1 cut(s)	412
HpyCH4V	TGCA	2 cut(s)	164, 187
HpyF10VI	GCNNNNNNNGC	1 cut(s)	170
Hsp92II	CATG	2 cut(s)	241, 280
LpnPI	CCDG	3 cut(s)	178, 205, 205
LweI	GCATC	2 cut(s)	173, 174
MaeI	CTAG	2 cut(s)	201, 375
MaeIII	GTNAC	2 cut(s)	50, 448
MboII	GAAGA	6 cut(s)	113, 128, 152, 155, 158, 401
MhlI	GDGCHC	1 cut(s)	66
MluCI	AATT	3 cut(s)	45, 83, 264
MnlI	CCTC	6 cut(s)	15, 18, 142, 189, 264, 310
Mph1103I	ATGCAT	1 cut(s)	166
MseI	TTAA	2 cut(s)	86, 428
MspR9I	CCNGG	1 cut(s)	193
MvaI	CCWGG	1 cut(s)	193
MwoI	GCNNNNNNNGC	1 cut(s)	170
NcoI	CCATGG	1 cut(s)	276
NlaIII	CATG	2 cut(s)	241, 280
NsiI	ATGCAT	1 cut(s)	166
PfeI	GAWTC	1 cut(s)	282
Psp6I	CCWGG	1 cut(s)	191
PspGI	CCWGG	1 cut(s)	191
PspPI	GGNCC	1 cut(s)	273
SaqAI	TTAA	2 cut(s)	86, 428
Sau96I	GGNCC	1 cut(s)	273
ScrFI	CCNGG	1 cut(s)	193
SduI	GDGCHC	1 cut(s)	66
SetI	ASST	6 cut(s)	29, 79, 200, 303, 408, 444
SfaNI	GCATC	2 cut(s)	173, 174
SinI	GGWCC	1 cut(s)	273
SpeI	ACTAGT	1 cut(s)	374
Sse9I	AATT	3 cut(s)	45, 83, 264
SspMI	CTAG	2 cut(s)	201, 375
StyD4I	CCNGG	1 cut(s)	191
StyI	CCWWGG	3 cut(s)	210, 276, 384
TasI	AATT	3 cut(s)	45, 83, 264
TfiI	GAWTC	1 cut(s)	282
Tru1I	TTAA	2 cut(s)	86, 428
Tru9I	TTAA	2 cut(s)	86, 428
TspDTI	ATGAA	5 cut(s)	27, 110, 114, 129, 153
VpaK11BI	GGWCC	1 cut(s)	273
XapI	RAATTY	1 cut(s)	264
XspI	CTAG	2 cut(s)	201, 375
Zsp2I	ATGCAT	1 cut(s)	166

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