Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000002

Orthogroup ID

OG0003092

Physical Location & Seq

Genomic Coordinates Forward (+)

60215486 .. 60218870

Gene Structure 3385 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_2G00125430.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 642 bp

ATGAGACAAACAAAATTTCCAAGAGTTAAATATGGTGTGGACTTTGTTGCCTACCGCCATCATCCAGCTCTAGTTCACTCTGAATATGCGGTGATTGTATTAAATGGTCAGAGTGTGGACTCCCCATCAAGTGTGGAGAGATTTACTGTTGAAGAGCGTACTATAACAAGATGGAAGCCAGAACAATGCCGTGTTGACGATAGATTAGTTCAAAGTGAAAAGGGAACCGAATTGGAGCAACTCGGTGCTGATATATTCTCCTGCTGTATTCACTCTACCGCCTCAGAACCTCTTGACATAGATGATTCTGAACAGATGTTGAATGACGGTGAGCTCTTTTCAACACTATGGCAGAGGATGGAAGCGATGAGGAGATTTACTCTCAATCTTCACAGGAGGTCTAGTGTATCCAAGGCTTACTGGGATGATGAGATGGGCATGGCTGTCGTATTTCCAAAGGGTAGAATTTGGAGGACCATGGGAATCTCTCGTAATGGCAAGCTCTATATCTCCATTGAGGAAGTTTTGTATTTGGTTGAAATAGGGGCTTTGCTTCTCTTGGATGGTAGTGATACTAGTATTTCCTTGGAAGATATAAACTGCTTGTTTCTTCAAAAGCAGTATATTAGTTTTCATACTTGA

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

213

Amino Acids

24.57

Weight (kDa)

5.41

Isoelectric Point (pI)

47.3

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
tRNA_int_end_N2	PF12928	130 - 186	1.1e-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

Style Settings

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Align Labels (Cladogram)

Image

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Publication-ready

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Orthologous Genes (Group: OG0003092)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G45577 AT3G45590 AT3G45590 AT5G60230 AT5G60230
fragaria_vesca	FvH4_2g14101 FvH4_2g14101 FvH4_2g14101 FvH4_2g14101 FvH4_2g14101 FvH4_2g14101 FvH4_2g14101
rosa_chinensis	RchiOBHm_Chr6g0276201
rosa_laevigata	RLG00000013409 RLG00000025847
rosa_multiflora	Rmu_sc0002063.1_g000007 Rmu_sc0004048.1_g000016 Rmu_sc0008839.1_g000006
rosa_roxburghii	Rroxscaffold_2G00125430 Rroxscaffold_7G00192490
rosa_rugosa	Rorug06G0098800 Rorug06G0098900 Rorug06G0098900 Rorug06G0099000 Rorug06G0099100 Rorug06G0099200 Rorug06G0099300 Rorug06G0124300
rosa_samantha	Rh1AG171200 Rh3BG017000 Rh3DG017300 Rh5BG538000 Rh5CG561900 Rh6AG210700 Rh6BG214900 Rh6DG207200
rosa_wichuraiana	Rw6G018360

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	3 cut(s)	55, 89, 279
AcsI	RAATTY	2 cut(s)	14, 465
AfaI	GTAC	1 cut(s)	160
AgsI	TTSAA	6 cut(s)	152, 212, 322, 342, 539, 614
AhlI	ACTAGT	1 cut(s)	575
AluBI	AGCT	3 cut(s)	68, 334, 502
AluI	AGCT	3 cut(s)	68, 334, 502
Alw21I	GWGCWC	1 cut(s)	336
ApoI	RAATTY	2 cut(s)	14, 465
AspS9I	GGNCC	1 cut(s)	474
AsuHPI	GGTGA	2 cut(s)	103, 341
AvaII	GGWCC	1 cut(s)	474
BanII	GRGCYC	1 cut(s)	336
Bbv12I	GWGCWC	1 cut(s)	336
BccI	CCATC	6 cut(s)	66, 133, 165, 352, 427, 557
BceAI	ACGGC	1 cut(s)	174
BcgI	CGANNNNNNTGC	2 cut(s)	427, 461
BciVI	GTATCC	1 cut(s)	418
BcuI	ACTAGT	1 cut(s)	575
BfaI	CTAG	3 cut(s)	71, 402, 576
BfuI	GTATCC	1 cut(s)	418
Bme18I	GGWCC	1 cut(s)	474
BmgT120I	GGNCC	1 cut(s)	474
BmiI	GGNNCC	1 cut(s)	226
BmrI	ACTGGG	1 cut(s)	430
BmuI	ACTGGG	1 cut(s)	430
BplI	GAGNNNNNCTC	2 cut(s)	364, 396
BsaJI	CCNNGG	3 cut(s)	411, 477, 585
BsaXI	ACNNNNNCTCC	2 cut(s)	388, 418
Bse1I	ACTGG	1 cut(s)	425
BseDI	CCNNGG	3 cut(s)	411, 477, 585
BseGI	GGATG	4 cut(s)	61, 363, 430, 568
BseMII	CTCAG	1 cut(s)	297
BseNI	ACTGG	1 cut(s)	425
BseRI	GAGGAG	1 cut(s)	385
BsiHKAI	GWGCWC	1 cut(s)	336
Bsp1286I	GDGCHC	1 cut(s)	336
Bsp19I	CCATGG	1 cut(s)	477
BspACI	CCGC	3 cut(s)	55, 89, 279
BspCNI	CTCAG	1 cut(s)	296
BspLI	GGNNCC	1 cut(s)	226
BspQI	GCTCTTC	1 cut(s)	147
BsrI	ACTGG	1 cut(s)	425
BssECI	CCNNGG	3 cut(s)	411, 477, 585
BssT1I	CCWWGG	3 cut(s)	411, 477, 585
Bst4CI	ACNGT	2 cut(s)	148, 329
Bst6I	CTCTTC	1 cut(s)	147
BstC8I	GCNNGC	1 cut(s)	500
BstDEI	CTNAG	1 cut(s)	283
BstDSI	CCRYGG	1 cut(s)	477
BstF5I	GGATG	4 cut(s)	61, 363, 430, 568
BsuI	GTATCC	1 cut(s)	418
BtgI	CCRYGG	1 cut(s)	477
BtgZI	GCGATG	1 cut(s)	380
BtsCI	GGATG	4 cut(s)	61, 363, 430, 568
Cac8I	GCNNGC	1 cut(s)	500
Cfr13I	GGNCC	1 cut(s)	474
Csp6I	GTAC	1 cut(s)	159
CviAII	CATG	2 cut(s)	439, 478
CviJI	RGCY	7 cut(s)	68, 178, 334, 416, 443, 502, 548
CviKI_1	RGCY	7 cut(s)	68, 178, 334, 416, 443, 502, 548
CviQI	GTAC	1 cut(s)	159
DdeI	CTNAG	1 cut(s)	283
Eam1104I	CTCTTC	1 cut(s)	147
EarI	CTCTTC	1 cut(s)	147
Ecl136II	GAGCTC	1 cut(s)	334
Eco130I	CCWWGG	3 cut(s)	411, 477, 585
Eco24I	GRGCYC	1 cut(s)	336
Eco47I	GGWCC	1 cut(s)	474
Eco53kI	GAGCTC	1 cut(s)	334
EcoICRI	GAGCTC	1 cut(s)	334
EcoT14I	CCWWGG	3 cut(s)	411, 477, 585
EcoT38I	GRGCYC	1 cut(s)	336
ErhI	CCWWGG	3 cut(s)	411, 477, 585
FaeI	CATG	2 cut(s)	442, 481
FatI	CATG	2 cut(s)	438, 477
FokI	GGATG	4 cut(s)	48, 370, 437, 575
FriOI	GRGCYC	1 cut(s)	336
FspBI	CTAG	3 cut(s)	71, 402, 576
Hin1II	CATG	2 cut(s)	442, 481
HincII	GTYRAC	1 cut(s)	196
HindII	GTYRAC	1 cut(s)	196
HinfI	GANTC	3 cut(s)	119, 305, 483
HphI	GGTGA	2 cut(s)	103, 341
Hpy166II	GTNNAC	4 cut(s)	40, 76, 118, 196
Hpy188I	TCNGA	4 cut(s)	82, 111, 286, 310
Hpy188III	TCNNGA	1 cut(s)	293
Hpy8I	GTNNAC	4 cut(s)	40, 76, 118, 196
HpyCH4III	ACNGT	2 cut(s)	148, 329
HpyF3I	CTNAG	1 cut(s)	283
Hsp92II	CATG	2 cut(s)	442, 481
LguI	GCTCTTC	1 cut(s)	147
LmnI	GCTCC	1 cut(s)	235
LpnPI	CCDG	5 cut(s)	78, 192, 274, 379, 406
MaeI	CTAG	3 cut(s)	71, 402, 576
MboII	GAAGA	4 cut(s)	164, 380, 602, 602
MhlI	GDGCHC	1 cut(s)	336
MluCI	AATT	3 cut(s)	14, 230, 465
MlyI	GAGTC	1 cut(s)	113
MnlI	CCTC	7 cut(s)	292, 300, 348, 363, 390, 465, 511
MseI	TTAA	2 cut(s)	27, 101
NcoI	CCATGG	1 cut(s)	477
NlaIII	CATG	2 cut(s)	442, 481
NlaIV	GGNNCC	1 cut(s)	226
PciSI	GCTCTTC	1 cut(s)	147
PfeI	GAWTC	2 cut(s)	305, 483
PleI	GAGTC	1 cut(s)	113
PpsI	GAGTC	1 cut(s)	113
Psp124BI	GAGCTC	1 cut(s)	336
PspN4I	GGNNCC	1 cut(s)	226
PspPI	GGNCC	1 cut(s)	474
RsaI	GTAC	1 cut(s)	160
RsaNI	GTAC	1 cut(s)	159
SacI	GAGCTC	1 cut(s)	336
SapI	GCTCTTC	1 cut(s)	147
SaqAI	TTAA	2 cut(s)	27, 101
Sau96I	GGNCC	1 cut(s)	474
SchI	GAGTC	1 cut(s)	113
SduI	GDGCHC	1 cut(s)	336
SetI	ASST	5 cut(s)	70, 292, 336, 401, 504
SinI	GGWCC	1 cut(s)	474
SpeI	ACTAGT	1 cut(s)	575
Sse9I	AATT	3 cut(s)	14, 230, 465
SsiI	CCGC	3 cut(s)	55, 89, 279
SspMI	CTAG	3 cut(s)	71, 402, 576
SstI	GAGCTC	1 cut(s)	336
StyI	CCWWGG	3 cut(s)	411, 477, 585
TaaI	ACNGT	2 cut(s)	148, 329
TasI	AATT	3 cut(s)	14, 230, 465
TfiI	GAWTC	2 cut(s)	305, 483
Tru1I	TTAA	2 cut(s)	27, 101
Tru9I	TTAA	2 cut(s)	27, 101
TspDTI	ATGAA	1 cut(s)	623
VpaK11BI	GGWCC	1 cut(s)	474
XapI	RAATTY	2 cut(s)	14, 465
XspI	CTAG	3 cut(s)	71, 402, 576

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