Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6C

Orthogroup ID

OG0002829

Physical Location & Seq

Genomic Coordinates Reverse (-)

36112696 .. 36132319

Gene Structure 19624 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6CG217700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 957 bp

ATGGGTGTTGGTCCTACTTGTTTGGATAAACCAAGGAGTAAACATGAACCTATTGACACAGATGATTCTGAACATAAGTTGAATCATGATGAGCTCTCTCTCAACACTATGGCAGAAGATGGAAGGGATGAGGAGGTAGCTGAAAAATTAATGATTATGCATGAAGAATGTTTAGATGAAGAGTATACCAATGACTATGATGAAGAAGAAGAAGAAGAAGAAGAAGAGGAAAACCACTATGCTTCTCGTGCCACATCCAAGATGCAACCCAGGAGGTCTAGTGTATCCAAGGCTTACTGGGATGATGAGATGGGCATGGCTGTCGTATTTCCAAAGGGTAGAATTTGGAGGACCATGGGAATCTCTCGTAATGGCAAGCTCTATATCTCCATTGAGGAAGTTTTGTATTTGGTTGAAATAGGGGCTTTGCTTCTCTTGGATGGTAGTGATACTAGTATTTCCTTGGAAGATATATATACGAAGGTTTCAGATGGAAAGAATGAGTTCTTGTTGGAGGAATTTAGAGCTTTTAGGCAACTCAGATACCTTGGTTACATTGTTGCGAGACATGGTATTCCTTGGTCTAGGAAGGGTGTCAAGACAAACTGTGAATCTGTTTCTTCTCAAGTTTGTCCTGAAGCTGAAGAGATTAGGTCTGTCAATGGATTGTTCAATGGGATACAGATTAATGGAGTGAGGGCAGTTTTTGATATTTATCTTCCAAACAGCAAGTTCAAGAAATCCTCTCCCGGTGATCCAAATTTTGTGCTCTGTTTTACTAGGGGCCATCCACCTTCCAAACCAGACCTTGAAGCCCTTGAGAGACAATTTGGTAGCACTCCTTTGAAGTTTTGTCATGTGGAGGAAGATTGTGTGAGTTTCTATTCCTTTGACAAAGTGGAACTTCATGTCCTCTCATGTCATCTGCAAAAATTTCGACATCCCTCTCTAAACTAA

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

318

Amino Acids

36.43

Weight (kDa)

4.93

Isoelectric Point (pI)

54.02

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
tRNA_int_end_N2	PF12928	91 - 145	1.4e-14	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

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0002829)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G02370 AT3G02370 AT3G02370 AT3G02370 AT3G57360
fragaria_vesca	FvH4_6g24380 FvH4_6g24380 FvH4_6g24380 FvH4_6g24380 FvH4_6g24380 FvH4_6g24380 FvH4_6g24380 FvH4_6g24380
malus_domestica	MD12G1080400.v1.1 MD14G1076600.v1.1
prunus_persica	Prupe.5G048800_v2.0.a1 Prupe.5G048800_v2.0.a1 Prupe.5G048800_v2.0.a1 Prupe.5G048800_v2.0.a1 Prupe.5G048800_v2.0.a1 Prupe.5G048800_v2.0.a1 Prupe.7G055000_v2.0.a1
pyrus_communis	pycom12g06700 pycom14g06490
rosa_chinensis	RchiOBHm_Chr3g0483371
rosa_laevigata	RLG00000023291
rosa_multiflora	Rmu_co8010216.1_g000001 Rmu_sc0006349.1_g000013
rosa_roxburghii	Rroxscaffold_6G00398410
rosa_rugosa	Rorug03G0205200.1 Rorug03G0205300.1 Rorug03G0205400.1 Rorug03G0205500
rosa_samantha	Rh3AG253800 Rh3BG290900 Rh3CG287900 Rh3DG283700 Rh6CG217700
rosa_wichuraiana	Rw0G023700

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	185
AclWI	GGATC	1 cut(s)	749
AcsI	RAATTY	4 cut(s)	342, 518, 760, 932
AcuI	CTGAAG	2 cut(s)	657, 663
AgsI	TTSAA	6 cut(s)	82, 416, 673, 736, 812, 847
AhlI	ACTAGT	1 cut(s)	452
AjnI	CCWGG	1 cut(s)	269
AloI	GAACNNNNNNTCC	2 cut(s)	894, 926
AluBI	AGCT	5 cut(s)	94, 140, 379, 527, 641
AluI	AGCT	5 cut(s)	94, 140, 379, 527, 641
Alw21I	GWGCWC	2 cut(s)	96, 771
Alw26I	GTCTC	2 cut(s)	559, 817
AlwI	GGATC	1 cut(s)	749
AoxI	GGCC	1 cut(s)	784
ApoI	RAATTY	4 cut(s)	342, 518, 760, 932
AseI	ATTAAT	2 cut(s)	149, 687
Asp700I	GAANNNNTTC	1 cut(s)	503
AspS9I	GGNCC	3 cut(s)	11, 351, 784
AsuC2I	CCSGG	1 cut(s)	750
AsuHPI	GGTGA	1 cut(s)	764
AvaII	GGWCC	2 cut(s)	11, 351
BaeI	ACNNNNGTAYC	2 cut(s)	535, 568
BanII	GRGCYC	1 cut(s)	96
BauI	CACGAG	1 cut(s)	246
Bbv12I	GWGCWC	2 cut(s)	96, 771
BccI	CCATC	5 cut(s)	113, 304, 434, 485, 795
BcgI	CGANNNNNNTGC	4 cut(s)	304, 338, 917, 951
BciT130I	CCWGG	1 cut(s)	271
BciVI	GTATCC	2 cut(s)	295, 672
BcnI	CCSGG	1 cut(s)	750
BcoDI	GTCTC	2 cut(s)	559, 817
BcuI	ACTAGT	1 cut(s)	452
BfaI	CTAG	4 cut(s)	279, 453, 585, 780
BfuI	GTATCC	2 cut(s)	295, 672
Bme1390I	CCNGG	2 cut(s)	271, 750
Bme18I	GGWCC	2 cut(s)	11, 351
BmgT120I	GGNCC	3 cut(s)	11, 351, 784
BmiI	GGNNCC	1 cut(s)	785
BmrFI	CCNGG	2 cut(s)	271, 750
BmrI	ACTGGG	1 cut(s)	307
BmsI	GCATC	1 cut(s)	252
BmuI	ACTGGG	1 cut(s)	307
BpuEI	CTTGAG	2 cut(s)	609, 839
BpuMI	CCSGG	1 cut(s)	750
BsaBI	GATNNNNATC	1 cut(s)	714
BsaJI	CCNNGG	7 cut(s)	32, 269, 288, 354, 462, 547, 578
BsaXI	ACNNNNNCTCC	2 cut(s)	265, 295
Bse1I	ACTGG	1 cut(s)	302
Bse8I	GATNNNNATC	1 cut(s)	714
BseBI	CCWGG	1 cut(s)	271
BseDI	CCNNGG	7 cut(s)	32, 269, 288, 354, 462, 547, 578
BseGI	GGATG	6 cut(s)	133, 254, 307, 445, 787, 940
BseJI	GATNNNNATC	1 cut(s)	714
BseMII	CTCAG	1 cut(s)	553
BseNI	ACTGG	1 cut(s)	302
BseRI	GAGGAG	1 cut(s)	146
BshFI	GGCC	1 cut(s)	786
BsiHKAI	GWGCWC	2 cut(s)	96, 771
BsiSI	CCGG	1 cut(s)	750
BsmAI	GTCTC	2 cut(s)	559, 817
BsnI	GGCC	1 cut(s)	786
Bsp1286I	GDGCHC	2 cut(s)	96, 771
Bsp143I	GATC	1 cut(s)	754
Bsp19I	CCATGG	1 cut(s)	354
BspANI	GGCC	1 cut(s)	786
BspCNI	CTCAG	1 cut(s)	552
BspHI	TCATGA	1 cut(s)	85
BspLI	GGNNCC	1 cut(s)	785
BspPI	GGATC	1 cut(s)	749
BsrI	ACTGG	1 cut(s)	302
BssECI	CCNNGG	7 cut(s)	32, 269, 288, 354, 462, 547, 578
BssMI	GATC	1 cut(s)	754
BssNAI	GTATAC	1 cut(s)	186
BssSI	CACGAG	1 cut(s)	246
BssT1I	CCWWGG	6 cut(s)	32, 288, 354, 462, 547, 578
Bst1107I	GTATAC	1 cut(s)	186
Bst2BI	CACGAG	1 cut(s)	246
Bst2UI	CCWGG	1 cut(s)	271
Bst4CI	ACNGT	1 cut(s)	608
Bst6I	CTCTTC	3 cut(s)	174, 219, 639
BstC8I	GCNNGC	1 cut(s)	377
BstDEI	CTNAG	1 cut(s)	539
BstDSI	CCRYGG	1 cut(s)	354
BstF5I	GGATG	6 cut(s)	133, 254, 307, 445, 787, 940
BstKTI	GATC	1 cut(s)	757
BstMAI	GTCTC	2 cut(s)	559, 817
BstMBI	GATC	1 cut(s)	754
BstMWI	GCNNNNNNNGC	1 cut(s)	248
BstNI	CCWGG	1 cut(s)	271
BstSCI	CCNGG	2 cut(s)	269, 748
BstZ17I	GTATAC	1 cut(s)	186
BsuI	GTATCC	2 cut(s)	295, 672
BsuRI	GGCC	1 cut(s)	786
BtgI	CCRYGG	1 cut(s)	354
BtsCI	GGATG	6 cut(s)	133, 254, 307, 445, 787, 940
Cac8I	GCNNGC	1 cut(s)	377
CciI	TCATGA	1 cut(s)	85
Cfr13I	GGNCC	3 cut(s)	11, 351, 784
CviAII	CATG	9 cut(s)	44, 86, 161, 316, 355, 569, 857, 908, 918
DdeI	CTNAG	1 cut(s)	539
DpnI	GATC	1 cut(s)	756
DpnII	GATC	1 cut(s)	754
Eam1104I	CTCTTC	3 cut(s)	174, 219, 639
EarI	CTCTTC	3 cut(s)	174, 219, 639
Ecl136II	GAGCTC	1 cut(s)	94
Eco130I	CCWWGG	6 cut(s)	32, 288, 354, 462, 547, 578
Eco24I	GRGCYC	1 cut(s)	96
Eco47I	GGWCC	2 cut(s)	11, 351
Eco53kI	GAGCTC	1 cut(s)	94
Eco57I	CTGAAG	2 cut(s)	657, 663
EcoICRI	GAGCTC	1 cut(s)	94
EcoRII	CCWGG	1 cut(s)	269
EcoT14I	CCWWGG	6 cut(s)	32, 288, 354, 462, 547, 578
EcoT22I	ATGCAT	1 cut(s)	162
EcoT38I	GRGCYC	1 cut(s)	96
ErhI	CCWWGG	6 cut(s)	32, 288, 354, 462, 547, 578
FaeI	CATG	9 cut(s)	47, 89, 164, 319, 358, 572, 860, 911, 921
FalI	AAGNNNNNCTT	2 cut(s)	888, 920
FatI	CATG	9 cut(s)	43, 85, 160, 315, 354, 568, 856, 907, 917
FblI	GTMKAC	1 cut(s)	185
FokI	GGATG	6 cut(s)	140, 241, 314, 452, 774, 927
FriOI	GRGCYC	1 cut(s)	96
FspBI	CTAG	4 cut(s)	279, 453, 585, 780
HaeIII	GGCC	1 cut(s)	786
HapII	CCGG	1 cut(s)	750
Hin1II	CATG	9 cut(s)	47, 89, 164, 319, 358, 572, 860, 911, 921
HinfI	GANTC	4 cut(s)	65, 82, 360, 611
HpaII	CCGG	1 cut(s)	750
HphI	GGTGA	1 cut(s)	764
Hpy166II	GTNNAC	2 cut(s)	41, 186
Hpy188I	TCNGA	3 cut(s)	70, 490, 542
Hpy188III	TCNNGA	4 cut(s)	86, 598, 635, 736
Hpy8I	GTNNAC	2 cut(s)	41, 186
HpyAV	CCTTC	4 cut(s)	117, 475, 583, 804
HpyCH4III	ACNGT	1 cut(s)	608
HpyCH4V	TGCA	3 cut(s)	160, 265, 928
HpyF10VI	GCNNNNNNNGC	1 cut(s)	248
HpyF3I	CTNAG	1 cut(s)	539
Hsp92II	CATG	9 cut(s)	47, 89, 164, 319, 358, 572, 860, 911, 921
Kzo9I	GATC	1 cut(s)	754
LpnPI	CCDG	6 cut(s)	256, 283, 283, 648, 763, 816
LweI	GCATC	1 cut(s)	252
MaeI	CTAG	4 cut(s)	279, 453, 585, 780
MaeIII	GTNAC	1 cut(s)	551
MalI	GATC	1 cut(s)	756
MboI	GATC	1 cut(s)	754
MhlI	GDGCHC	2 cut(s)	96, 771
MluCI	AATT	6 cut(s)	146, 342, 518, 760, 827, 932
MmeI	TCCRAC	1 cut(s)	492
Mph1103I	ATGCAT	1 cut(s)	162
MroXI	GAANNNNTTC	1 cut(s)	503
MseI	TTAA	2 cut(s)	149, 687
MspI	CCGG	1 cut(s)	750
MspR9I	CCNGG	2 cut(s)	271, 750
MvaI	CCWGG	1 cut(s)	271
MwoI	GCNNNNNNNGC	1 cut(s)	248
NciI	CCSGG	1 cut(s)	750
NcoI	CCATGG	1 cut(s)	354
NdeII	GATC	1 cut(s)	754
NlaIII	CATG	9 cut(s)	47, 89, 164, 319, 358, 572, 860, 911, 921
NlaIV	GGNNCC	1 cut(s)	785
NsiI	ATGCAT	1 cut(s)	162
PagI	TCATGA	1 cut(s)	85
PdmI	GAANNNNTTC	1 cut(s)	503
PfeI	GAWTC	4 cut(s)	65, 82, 360, 611
PshBI	ATTAAT	2 cut(s)	149, 687
Psp124BI	GAGCTC	1 cut(s)	96
Psp6I	CCWGG	1 cut(s)	269
PspGI	CCWGG	1 cut(s)	269
PspN4I	GGNNCC	1 cut(s)	785
PspPI	GGNCC	3 cut(s)	11, 351, 784
SacI	GAGCTC	1 cut(s)	96
SaqAI	TTAA	2 cut(s)	149, 687
Sau3AI	GATC	1 cut(s)	754
Sau96I	GGNCC	3 cut(s)	11, 351, 784
ScrFI	CCNGG	2 cut(s)	271, 750
SduI	GDGCHC	2 cut(s)	96, 771
SfaNI	GCATC	1 cut(s)	252
SinI	GGWCC	2 cut(s)	11, 351
SmlI	CTYRAG	2 cut(s)	624, 818
SmoI	CTYRAG	2 cut(s)	624, 818
SpeI	ACTAGT	1 cut(s)	452
Sse9I	AATT	6 cut(s)	146, 342, 518, 760, 827, 932
SspMI	CTAG	4 cut(s)	279, 453, 585, 780
SstI	GAGCTC	1 cut(s)	96
StyD4I	CCNGG	2 cut(s)	269, 748
StyI	CCWWGG	6 cut(s)	32, 288, 354, 462, 547, 578
TaaI	ACNGT	1 cut(s)	608
TaqI	TCGA	1 cut(s)	937
TasI	AATT	6 cut(s)	146, 342, 518, 760, 827, 932
TfiI	GAWTC	4 cut(s)	65, 82, 360, 611
Tru1I	TTAA	2 cut(s)	149, 687
Tru9I	TTAA	2 cut(s)	149, 687
TspDTI	ATGAA	5 cut(s)	60, 177, 192, 216, 896
VpaK11BI	GGWCC	2 cut(s)	11, 351
VspI	ATTAAT	2 cut(s)	149, 687
XapI	RAATTY	4 cut(s)	342, 518, 760, 932
XmiI	GTMKAC	1 cut(s)	185
XmnI	GAANNNNTTC	1 cut(s)	503
XspI	CTAG	4 cut(s)	279, 453, 585, 780
Zsp2I	ATGCAT	1 cut(s)	162

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