Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1A

Orthogroup ID

OG0003092

Physical Location & Seq

Genomic Coordinates Forward (+)

32794795 .. 32799272

Gene Structure 4478 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1AG171200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1221 bp

ATGCCTTCCAAGATCTATGGCCTCACCGCACTAGACACAACCGATCTGCAAAACACAGAGCCACCATCGGGTAAAAAACCCCACAACAAAAGGCACGAAACCAACATCCTCTCACGCTTGAGGCGCGTTCTTTTCCTCGGTAAATGTCAGGAGAGACACCATAGAAATCTTCAAGGGAGACAAACAAAATTTCCAAGAGTTAAATGTGGTGTGGACTTTGTTGCCTACCGCCATCATCCAGCTCTAGTTCACTCTGAATATGCGGTGATTGTATTGTCAGAGCAACATAGTGATGGAAATAAGCTACTGACGGACTGGTTAGAGATTCATTGTACTACTCGTCTTTGTGGAGGTGTTGCAAAGACATTGTTAGTTCTTTATATTAGCAGAAATGGTCAGAGTGTGGACTCCCCATCAAGTGTGGAGAGATTTACTGTTGAAGAGCGTACTATAACAAGATGGAAGCCAGAACAATGCCGTGTTGACAATAGATTAGTTCAAAGTGAAAGGGGAACCGAATTGGAGCAACTCGGTGCTGATATATTCTCCTGCTGTATTCACTCTACCGATGATTCTGAACAGATGTTGAATGACGATGAGCTCTTTTTCAACACTATGGCAGAGGATGGAAGCGATGAGGAGGTAGCTCAAAAATTAACGATTATGAATGAAGAATGTTTAGATGAAGAATATACCAATGACTATGATGAAGAAGAAGAGGAAAACCACTATGCTTCTCGTGCCATATCCAAGATGCAACCCAGGAGGTCTAGTGTATCCAAGGCTTACTGGGATGATGAGATGGGCATGGCTGTCGTATTTCCAAAGGGTAGAATTTGGAGGACCATGGGAATCTCTCGTAATGGCAAGCTCTATATCTCCATTGAGGAAGTTTTGTATTTGGTTGAAATAGGGGCTTTGCTTCTCTTGGATGGTAGTGATACTAGTATTTCCCTGGAAGATATATATACAAAGGTTTCAGATGGAAAGAATAAGTTCTTGTTGGAGGAATTTAGAGCTTATAGCAACTCAGATACCTTGGGTACATTGTTGCGAGACATGGAATTCCCTGGTCTAGTAAAGGTGTCAAGACTAACTGTGAATCTGTTTCTTCTCAAGTTTGTCCTGAAGCTGAAGAGATTAGGTCTGTCAATGGATTGTTCAATGGGATACAGATTAATGATACTTGACCTTTTGGTTACTTGTTTGGTAGCAATATAG

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

406

Amino Acids

46.45

Weight (kDa)

5.5

Isoelectric Point (pI)

52.75

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
tRNA_int_endo	PF01974	67 - 133	1.4e-07	tRNA intron endonuclease, catalytic C-terminal domain
tRNA_int_end_N2	PF12928	255 - 309	2.6e-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

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: 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)
AccII	CGCG	1 cut(s)	126
AciI	CCGC	3 cut(s)	27, 229, 263
AcsI	RAATTY	4 cut(s)	188, 834, 1010, 1064
AcuI	CTGAAG	2 cut(s)	1148, 1154
AfaI	GTAC	3 cut(s)	334, 448, 1045
AfiI	CCNNNNNNNGG	1 cut(s)	68
AgsI	TTSAA	7 cut(s)	173, 440, 500, 589, 610, 908, 1164
AhlI	ACTAGT	1 cut(s)	944
AjnI	CCWGG	3 cut(s)	761, 954, 1069
AluBI	AGCT	7 cut(s)	242, 304, 601, 647, 871, 1019, 1132
AluI	AGCT	7 cut(s)	242, 304, 601, 647, 871, 1019, 1132
Alw21I	GWGCWC	1 cut(s)	603
Alw26I	GTCTC	3 cut(s)	148, 172, 1050
AoxI	GGCC	1 cut(s)	19
ApoI	RAATTY	4 cut(s)	188, 834, 1010, 1064
AseI	ATTAAT	1 cut(s)	1178
Asp700I	GAANNNNTTC	1 cut(s)	995
AspLEI	GCGC	1 cut(s)	126
AspS9I	GGNCC	1 cut(s)	843
AsuHPI	GGTGA	2 cut(s)	16, 277
AvaII	GGWCC	1 cut(s)	843
BanII	GRGCYC	1 cut(s)	603
BauI	CACGAG	1 cut(s)	738
Bbv12I	GWGCWC	1 cut(s)	603
BccI	CCATC	9 cut(s)	73, 240, 287, 421, 453, 620, 796, 926, 977
BceAI	ACGGC	1 cut(s)	462
BcgI	CGANNNNNNTGC	2 cut(s)	796, 830
BciT130I	CCWGG	3 cut(s)	763, 956, 1071
BciVI	GTATCC	2 cut(s)	787, 1163
BcoDI	GTCTC	3 cut(s)	148, 172, 1050
BcuI	ACTAGT	1 cut(s)	944
BfaI	CTAG	5 cut(s)	32, 245, 771, 945, 1076
BfuI	GTATCC	2 cut(s)	787, 1163
BglII	AGATCT	1 cut(s)	12
Bme1390I	CCNGG	3 cut(s)	763, 956, 1071
Bme18I	GGWCC	1 cut(s)	843
BmgT120I	GGNCC	1 cut(s)	843
BmiI	GGNNCC	1 cut(s)	514
BmrFI	CCNGG	3 cut(s)	763, 956, 1071
BmrI	ACTGGG	1 cut(s)	799
BmsI	GCATC	1 cut(s)	744
BmuI	ACTGGG	1 cut(s)	799
BpuEI	CTTGAG	2 cut(s)	139, 1100
BsaJI	CCNNGG	7 cut(s)	136, 761, 780, 846, 954, 1038, 1069
BsaXI	ACNNNNNCTCC	2 cut(s)	757, 787
Bsc4I	CCNNNNNNNGG	1 cut(s)	68
Bse1I	ACTGG	2 cut(s)	320, 794
BseBI	CCWGG	3 cut(s)	763, 956, 1071
BseDI	CCNNGG	7 cut(s)	136, 761, 780, 846, 954, 1038, 1069
BseGI	GGATG	5 cut(s)	105, 235, 631, 799, 937
BseLI	CCNNNNNNNGG	1 cut(s)	68
BseMII	CTCAG	1 cut(s)	1044
BseNI	ACTGG	2 cut(s)	320, 794
BseRI	GAGGAG	1 cut(s)	653
Bsh1236I	CGCG	1 cut(s)	126
BshFI	GGCC	1 cut(s)	21
BsiHKAI	GWGCWC	1 cut(s)	603
BslI	CCNNNNNNNGG	1 cut(s)	68
BsmAI	GTCTC	3 cut(s)	148, 172, 1050
BsnI	GGCC	1 cut(s)	21
Bsp1286I	GDGCHC	1 cut(s)	603
Bsp143I	GATC	2 cut(s)	12, 43
Bsp19I	CCATGG	1 cut(s)	846
BspACI	CCGC	3 cut(s)	27, 229, 263
BspANI	GGCC	1 cut(s)	21
BspCNI	CTCAG	1 cut(s)	1043
BspFNI	CGCG	1 cut(s)	126
BspLI	GGNNCC	1 cut(s)	514
BspQI	GCTCTTC	1 cut(s)	435
BsrI	ACTGG	2 cut(s)	320, 794
BssECI	CCNNGG	7 cut(s)	136, 761, 780, 846, 954, 1038, 1069
BssMI	GATC	2 cut(s)	12, 43
BssSI	CACGAG	1 cut(s)	738
BssT1I	CCWWGG	3 cut(s)	780, 846, 1038
Bst2BI	CACGAG	1 cut(s)	738
Bst2UI	CCWGG	3 cut(s)	763, 956, 1071
Bst4CI	ACNGT	2 cut(s)	436, 1099
Bst6I	CTCTTC	3 cut(s)	435, 711, 1130
BstC8I	GCNNGC	1 cut(s)	869
BstDEI	CTNAG	1 cut(s)	1030
BstDSI	CCRYGG	1 cut(s)	846
BstF5I	GGATG	5 cut(s)	105, 235, 631, 799, 937
BstFNI	CGCG	1 cut(s)	126
BstHHI	GCGC	1 cut(s)	126
BstKTI	GATC	2 cut(s)	15, 46
BstMAI	GTCTC	3 cut(s)	148, 172, 1050
BstMBI	GATC	2 cut(s)	12, 43
BstMWI	GCNNNNNNNGC	2 cut(s)	123, 740
BstNI	CCWGG	3 cut(s)	763, 956, 1071
BstSCI	CCNGG	3 cut(s)	761, 954, 1069
BstUI	CGCG	1 cut(s)	126
BstX2I	RGATCY	1 cut(s)	12
BstYI	RGATCY	1 cut(s)	12
BsuI	GTATCC	2 cut(s)	787, 1163
BsuRI	GGCC	1 cut(s)	21
BtgI	CCRYGG	1 cut(s)	846
BtgZI	GCGATG	1 cut(s)	648
BtsCI	GGATG	5 cut(s)	105, 235, 631, 799, 937
Cac8I	GCNNGC	1 cut(s)	869
CfoI	GCGC	1 cut(s)	126
Cfr13I	GGNCC	1 cut(s)	843
Csp6I	GTAC	3 cut(s)	333, 447, 1044
CviAII	CATG	3 cut(s)	808, 847, 1060
CviQI	GTAC	3 cut(s)	333, 447, 1044
DdeI	CTNAG	1 cut(s)	1030
DpnI	GATC	2 cut(s)	14, 45
DpnII	GATC	2 cut(s)	12, 43
Eam1104I	CTCTTC	3 cut(s)	435, 711, 1130
EarI	CTCTTC	3 cut(s)	435, 711, 1130
Ecl136II	GAGCTC	1 cut(s)	601
Eco130I	CCWWGG	3 cut(s)	780, 846, 1038
Eco24I	GRGCYC	1 cut(s)	603
Eco47I	GGWCC	1 cut(s)	843
Eco53kI	GAGCTC	1 cut(s)	601
Eco57I	CTGAAG	2 cut(s)	1148, 1154
EcoICRI	GAGCTC	1 cut(s)	601
EcoRI	GAATTC	1 cut(s)	1064
EcoRII	CCWGG	3 cut(s)	761, 954, 1069
EcoT14I	CCWWGG	3 cut(s)	780, 846, 1038
EcoT38I	GRGCYC	1 cut(s)	603
ErhI	CCWWGG	3 cut(s)	780, 846, 1038
FaeI	CATG	3 cut(s)	811, 850, 1063
FatI	CATG	3 cut(s)	807, 846, 1059
FokI	GGATG	5 cut(s)	92, 222, 638, 806, 944
FriOI	GRGCYC	1 cut(s)	603
FspBI	CTAG	5 cut(s)	32, 245, 771, 945, 1076
GlaI	GCGC	1 cut(s)	125
HaeIII	GGCC	1 cut(s)	21
HhaI	GCGC	1 cut(s)	126
Hin1II	CATG	3 cut(s)	811, 850, 1063
Hin6I	GCGC	1 cut(s)	124
HinP1I	GCGC	1 cut(s)	124
HincII	GTYRAC	1 cut(s)	484
HindII	GTYRAC	1 cut(s)	484
HinfI	GANTC	5 cut(s)	325, 407, 572, 852, 1102
HphI	GGTGA	2 cut(s)	16, 277
Hpy166II	GTNNAC	4 cut(s)	214, 250, 406, 484
Hpy188I	TCNGA	6 cut(s)	256, 280, 399, 577, 982, 1033
Hpy188III	TCNNGA	3 cut(s)	149, 1089, 1126
Hpy8I	GTNNAC	4 cut(s)	214, 250, 406, 484
HpyAV	CCTTC	1 cut(s)	15
HpyCH4III	ACNGT	2 cut(s)	436, 1099
HpyCH4V	TGCA	3 cut(s)	49, 359, 757
HpyF10VI	GCNNNNNNNGC	2 cut(s)	123, 740
HpyF3I	CTNAG	1 cut(s)	1030
Hsp92II	CATG	3 cut(s)	811, 850, 1063
HspAI	GCGC	1 cut(s)	124
Kzo9I	GATC	2 cut(s)	12, 43
LguI	GCTCTTC	1 cut(s)	435
LmnI	GCTCC	1 cut(s)	523
LweI	GCATC	1 cut(s)	744
MaeI	CTAG	5 cut(s)	32, 245, 771, 945, 1076
MaeIII	GTNAC	1 cut(s)	1198
MalI	GATC	2 cut(s)	14, 45
MboI	GATC	2 cut(s)	12, 43
MflI	RGATCY	1 cut(s)	12
MhlI	GDGCHC	1 cut(s)	603
MluCI	AATT	6 cut(s)	188, 518, 653, 834, 1010, 1064
MlyI	GAGTC	1 cut(s)	401
MmeI	TCCRAC	1 cut(s)	984
MroXI	GAANNNNTTC	1 cut(s)	995
MseI	TTAA	3 cut(s)	201, 656, 1178
MslI	CAYNNNNRTG	1 cut(s)	291
MspR9I	CCNGG	3 cut(s)	763, 956, 1071
MvaI	CCWGG	3 cut(s)	763, 956, 1071
MvnI	CGCG	1 cut(s)	126
MwoI	GCNNNNNNNGC	2 cut(s)	123, 740
NcoI	CCATGG	1 cut(s)	846
NdeII	GATC	2 cut(s)	12, 43
NlaIII	CATG	3 cut(s)	811, 850, 1063
NlaIV	GGNNCC	1 cut(s)	514
PciSI	GCTCTTC	1 cut(s)	435
PdmI	GAANNNNTTC	1 cut(s)	995
PfeI	GAWTC	4 cut(s)	325, 572, 852, 1102
PleI	GAGTC	1 cut(s)	401
PpsI	GAGTC	1 cut(s)	401
PshBI	ATTAAT	1 cut(s)	1178
Psp124BI	GAGCTC	1 cut(s)	603
Psp6I	CCWGG	3 cut(s)	761, 954, 1069
PspGI	CCWGG	3 cut(s)	761, 954, 1069
PspN4I	GGNNCC	1 cut(s)	514
PspPI	GGNCC	1 cut(s)	843
PsuI	RGATCY	1 cut(s)	12
RsaI	GTAC	3 cut(s)	334, 448, 1045
RsaNI	GTAC	3 cut(s)	333, 447, 1044
RseI	CAYNNNNRTG	1 cut(s)	291
SacI	GAGCTC	1 cut(s)	603
SapI	GCTCTTC	1 cut(s)	435
SaqAI	TTAA	3 cut(s)	201, 656, 1178
Sau3AI	GATC	2 cut(s)	12, 43
Sau96I	GGNCC	1 cut(s)	843
SchI	GAGTC	1 cut(s)	401
ScrFI	CCNGG	3 cut(s)	763, 956, 1071
SduI	GDGCHC	1 cut(s)	603
SfaNI	GCATC	1 cut(s)	744
SinI	GGWCC	1 cut(s)	843
SmiMI	CAYNNNNRTG	1 cut(s)	291
SmlI	CTYRAG	2 cut(s)	118, 1115
SmoI	CTYRAG	2 cut(s)	118, 1115
SpeI	ACTAGT	1 cut(s)	944
Sse9I	AATT	6 cut(s)	188, 518, 653, 834, 1010, 1064
SsiI	CCGC	3 cut(s)	27, 229, 263
SspMI	CTAG	5 cut(s)	32, 245, 771, 945, 1076
SstI	GAGCTC	1 cut(s)	603
StyD4I	CCNGG	3 cut(s)	761, 954, 1069
StyI	CCWWGG	3 cut(s)	780, 846, 1038
TaaI	ACNGT	2 cut(s)	436, 1099
TasI	AATT	6 cut(s)	188, 518, 653, 834, 1010, 1064
TatI	WGTACW	1 cut(s)	332
TfiI	GAWTC	4 cut(s)	325, 572, 852, 1102
Tru1I	TTAA	3 cut(s)	201, 656, 1178
Tru9I	TTAA	3 cut(s)	201, 656, 1178
TspDTI	ATGAA	5 cut(s)	317, 680, 684, 699, 723
TspGWI	ACGGA	1 cut(s)	326
VpaK11BI	GGWCC	1 cut(s)	843
VspI	ATTAAT	1 cut(s)	1178
XapI	RAATTY	4 cut(s)	188, 834, 1010, 1064
XmnI	GAANNNNTTC	1 cut(s)	995
XspI	CTAG	5 cut(s)	32, 245, 771, 945, 1076

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