Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6D

Orthogroup ID

OG0003092

Physical Location & Seq

Genomic Coordinates Reverse (-)

36828646 .. 36833287

Gene Structure 4642 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6DG207200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 969 bp

ATGAAAGCAGAAGAAGCTAATCTCCTTGAATCTGCCTGCTTTGGTGTTAGAGTGATGGAGAATAAGCACTGGTTTCAGTTGAGTATGGAAGAGGCCTTCTACGTATGCCATTCTCTAAAATGCCTCGAGATAGTTGAAGATAAGTGCTCCAAGAATGATAACCAGCTATGGAAGTGCATGGAATCCAGAAGAGCATCGTTCCCCTATTTGTACAAGGCTTATTCTCATCTTAGAATGAAAAATTGGGTTGTCAGGTCAGGAGTTAAATATGGTGTGGACTTTGTTGCCTACCGCCATCATCCAGCTCTAGTTCACTCTGAATATGCGGTGATTGTATTGTCAGAGGAACATAGTGATGGAAATAAGCAACTGACGGAGTGGTTAGATATTCATTGTACCACTCGTCTTTGTGGAGGTGTTGCAAAGACATTGTTAGTTCTTTATATCAGCAGAAATGGTCATAGTGTGGACTCCCCATCAAGTGTGGAGAGATTTACTGTTGAAGAGCGTACGATAACAAGATGGAAGCCAGAACAATGCCGTGTGGACGATAGATTAGTTCAAAGTGAAAAGGGAACCGAATCGGAGCAACTCGCTGCTGATATATTCTCCCGCTGTTCTCACTCTACCGATGATTCTGAACAGAAGTTGAATCATGATGAGCTCTCTCTCAACACTATGGCAGAGGATGGAAGCAATGAGGAGGTAGCTGAAAAATTAACGATTATGCATGAAGAATGTTTAGATGAAGAGTATACCAATGACCATGATGAAGAAGAAGAAGAGGAAAACCACTATGCTTCTCGTGCCACATCCAAGATGCAACCCAGGAGGTCTAGTGTATCCAAGGCTCACTGGGATGATGAGATGGGCATGGCTGTCGTATTTCCAAAGGGTAGAATTTGGAGGACCATGGGAATCTCTCGTAATGGCAAGCTCTATATCTCCATTGAGGAAGTTTTGCAATAG

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

322

Amino Acids

37.3

Weight (kDa)

5.31

Isoelectric Point (pI)

63.85

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
tRNA_int_endo	PF01974	70 - 153	3.6e-18	tRNA intron endonuclease, catalytic C-terminal domain
tRNA_int_end_N2	PF12928	277 - 321	5.7e-08	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

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

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)
AccI	GTMKAC	1 cut(s)	755
AciI	CCGC	3 cut(s)	292, 326, 613
AcsI	RAATTY	1 cut(s)	900
AfaI	GTAC	3 cut(s)	212, 397, 511
AgsI	TTSAA	5 cut(s)	29, 137, 503, 563, 652
AjnI	CCWGG	1 cut(s)	827
AjuI	GAANNNNNNNTTGG	2 cut(s)	226, 258
AluBI	AGCT	6 cut(s)	17, 166, 305, 664, 710, 937
AluI	AGCT	6 cut(s)	17, 166, 305, 664, 710, 937
Alw21I	GWGCWC	2 cut(s)	149, 666
Ama87I	CYCGRG	1 cut(s)	125
AoxI	GGCC	1 cut(s)	93
ApeKI	GCWGC	1 cut(s)	596
ApoI	RAATTY	1 cut(s)	900
AspS9I	GGNCC	1 cut(s)	909
AsuHPI	GGTGA	1 cut(s)	340
AvaI	CYCGRG	1 cut(s)	125
AvaII	GGWCC	1 cut(s)	909
BanII	GRGCYC	1 cut(s)	666
BauI	CACGAG	1 cut(s)	804
Bbv12I	GWGCWC	2 cut(s)	149, 666
BbvI	GCAGC	1 cut(s)	583
BccI	CCATC	7 cut(s)	49, 303, 350, 484, 516, 683, 862
BceAI	ACGGC	1 cut(s)	525
BcgI	CGANNNNNNTGC	2 cut(s)	862, 896
BciT130I	CCWGG	1 cut(s)	829
BciVI	GTATCC	1 cut(s)	853
BfaI	CTAG	2 cut(s)	308, 837
BfuI	GTATCC	1 cut(s)	853
BisI	GCNGC	1 cut(s)	597
BlsI	GCNGC	1 cut(s)	598
Bme1390I	CCNGG	1 cut(s)	829
Bme18I	GGWCC	1 cut(s)	909
BmeT110I	CYCGRG	1 cut(s)	125
BmgT120I	GGNCC	1 cut(s)	909
BmiI	GGNNCC	1 cut(s)	577
BmrFI	CCNGG	1 cut(s)	829
BmrI	ACTGGG	1 cut(s)	865
BmsI	GCATC	2 cut(s)	203, 810
BmuI	ACTGGG	1 cut(s)	865
BsaAI	YACGTR	1 cut(s)	103
BsaJI	CCNNGG	3 cut(s)	827, 846, 912
BsaXI	ACNNNNNCTCC	2 cut(s)	823, 853
Bse1I	ACTGG	2 cut(s)	74, 860
Bse3DI	GCAATG	1 cut(s)	703
BseBI	CCWGG	1 cut(s)	829
BseDI	CCNNGG	3 cut(s)	827, 846, 912
BseGI	GGATG	4 cut(s)	298, 694, 812, 865
BseMI	GCAATG	1 cut(s)	703
BseNI	ACTGG	2 cut(s)	74, 860
BseRI	GAGGAG	1 cut(s)	716
BseXI	GCAGC	1 cut(s)	583
BshFI	GGCC	1 cut(s)	95
BsiHKAI	GWGCWC	2 cut(s)	149, 666
BsiHKCI	CYCGRG	1 cut(s)	125
BsiWI	CGTACG	1 cut(s)	509
BsnI	GGCC	1 cut(s)	95
BsoBI	CYCGRG	1 cut(s)	125
Bsp1286I	GDGCHC	2 cut(s)	149, 666
Bsp1407I	TGTACA	1 cut(s)	210
Bsp19I	CCATGG	1 cut(s)	912
BspACI	CCGC	3 cut(s)	292, 326, 613
BspANI	GGCC	1 cut(s)	95
BspHI	TCATGA	1 cut(s)	655
BspLI	GGNNCC	1 cut(s)	577
BspQI	GCTCTTC	2 cut(s)	184, 498
BsrDI	GCAATG	1 cut(s)	703
BsrGI	TGTACA	1 cut(s)	210
BsrI	ACTGG	2 cut(s)	74, 860
BssECI	CCNNGG	3 cut(s)	827, 846, 912
BssNAI	GTATAC	1 cut(s)	756
BssSI	CACGAG	1 cut(s)	804
BssT1I	CCWWGG	2 cut(s)	846, 912
Bst1107I	GTATAC	1 cut(s)	756
Bst2BI	CACGAG	1 cut(s)	804
Bst2UI	CCWGG	1 cut(s)	829
Bst4CI	ACNGT	1 cut(s)	499
Bst6I	CTCTTC	5 cut(s)	84, 184, 498, 744, 777
BstAUI	TGTACA	1 cut(s)	210
BstBAI	YACGTR	1 cut(s)	103
BstC8I	GCNNGC	2 cut(s)	37, 935
BstDEI	CTNAG	1 cut(s)	230
BstDSI	CCRYGG	1 cut(s)	912
BstF5I	GGATG	4 cut(s)	298, 694, 812, 865
BstMWI	GCNNNNNNNGC	2 cut(s)	14, 806
BstNI	CCWGG	1 cut(s)	829
BstSCI	CCNGG	1 cut(s)	827
BstSNI	TACGTA	1 cut(s)	103
BstV1I	GCAGC	1 cut(s)	583
BstZ17I	GTATAC	1 cut(s)	756
BsuI	GTATCC	1 cut(s)	853
BsuRI	GGCC	1 cut(s)	95
BtgI	CCRYGG	1 cut(s)	912
BtsCI	GGATG	4 cut(s)	298, 694, 812, 865
BtsIMutI	CAGTG	2 cut(s)	67, 853
Cac8I	GCNNGC	2 cut(s)	37, 935
CciI	TCATGA	1 cut(s)	655
Cfr13I	GGNCC	1 cut(s)	909
Csp6I	GTAC	3 cut(s)	211, 396, 510
CviAII	CATG	6 cut(s)	178, 656, 731, 767, 874, 913
CviQI	GTAC	3 cut(s)	211, 396, 510
DdeI	CTNAG	1 cut(s)	230
Eam1104I	CTCTTC	5 cut(s)	84, 184, 498, 744, 777
EarI	CTCTTC	5 cut(s)	84, 184, 498, 744, 777
Ecl136II	GAGCTC	1 cut(s)	664
Eco105I	TACGTA	1 cut(s)	103
Eco130I	CCWWGG	2 cut(s)	846, 912
Eco147I	AGGCCT	1 cut(s)	95
Eco24I	GRGCYC	1 cut(s)	666
Eco47I	GGWCC	1 cut(s)	909
Eco53kI	GAGCTC	1 cut(s)	664
Eco88I	CYCGRG	1 cut(s)	125
EcoICRI	GAGCTC	1 cut(s)	664
EcoRII	CCWGG	1 cut(s)	827
EcoT14I	CCWWGG	2 cut(s)	846, 912
EcoT22I	ATGCAT	1 cut(s)	732
EcoT38I	GRGCYC	1 cut(s)	666
ErhI	CCWWGG	2 cut(s)	846, 912
FaeI	CATG	6 cut(s)	181, 659, 734, 770, 877, 916
FatI	CATG	6 cut(s)	177, 655, 730, 766, 873, 912
FauI	CCCGC	1 cut(s)	620
FblI	GTMKAC	1 cut(s)	755
Fnu4HI	GCNGC	1 cut(s)	597
FokI	GGATG	4 cut(s)	285, 701, 799, 872
FriOI	GRGCYC	1 cut(s)	666
Fsp4HI	GCNGC	1 cut(s)	597
FspBI	CTAG	2 cut(s)	308, 837
GluI	GCNGC	1 cut(s)	597
HaeIII	GGCC	1 cut(s)	95
Hin1II	CATG	6 cut(s)	181, 659, 734, 770, 877, 916
HinfI	GANTC	7 cut(s)	29, 182, 470, 581, 635, 652, 918
HphI	GGTGA	1 cut(s)	340
Hpy166II	GTNNAC	5 cut(s)	277, 313, 469, 547, 756
Hpy188I	TCNGA	4 cut(s)	319, 343, 586, 640
Hpy188III	TCNNGA	4 cut(s)	127, 186, 258, 656
Hpy8I	GTNNAC	5 cut(s)	277, 313, 469, 547, 756
HpyAV	CCTTC	1 cut(s)	106
HpyCH4III	ACNGT	1 cut(s)	499
HpyCH4IV	ACGT	1 cut(s)	102
HpyCH4V	TGCA	5 cut(s)	177, 422, 730, 823, 964
HpyF10VI	GCNNNNNNNGC	2 cut(s)	14, 806
HpyF3I	CTNAG	1 cut(s)	230
HpySE526I	ACGT	1 cut(s)	102
Hsp92II	CATG	6 cut(s)	181, 659, 734, 770, 877, 916
LguI	GCTCTTC	2 cut(s)	184, 498
LmnI	GCTCC	2 cut(s)	152, 586
Lsp1109I	GCAGC	1 cut(s)	583
LweI	GCATC	2 cut(s)	203, 810
MaeI	CTAG	2 cut(s)	308, 837
MaeII	ACGT	1 cut(s)	102
MhlI	GDGCHC	2 cut(s)	149, 666
MluCI	AATT	3 cut(s)	241, 716, 900
MlyI	GAGTC	1 cut(s)	464
Mph1103I	ATGCAT	1 cut(s)	732
MseI	TTAA	2 cut(s)	264, 719
MslI	CAYNNNNRTG	2 cut(s)	354, 858
MspA1I	CMGCKG	1 cut(s)	615
MspR9I	CCNGG	1 cut(s)	829
MvaI	CCWGG	1 cut(s)	829
MwoI	GCNNNNNNNGC	2 cut(s)	14, 806
NcoI	CCATGG	1 cut(s)	912
NlaIII	CATG	6 cut(s)	181, 659, 734, 770, 877, 916
NlaIV	GGNNCC	1 cut(s)	577
NsiI	ATGCAT	1 cut(s)	732
PaeR7I	CTCGAG	1 cut(s)	125
PagI	TCATGA	1 cut(s)	655
PceI	AGGCCT	1 cut(s)	95
PciSI	GCTCTTC	2 cut(s)	184, 498
PfeI	GAWTC	6 cut(s)	29, 182, 581, 635, 652, 918
Pfl23II	CGTACG	1 cut(s)	509
PkrI	GCNGC	1 cut(s)	598
PleI	GAGTC	1 cut(s)	464
PpsI	GAGTC	1 cut(s)	464
Ppu21I	YACGTR	1 cut(s)	103
Psp124BI	GAGCTC	1 cut(s)	666
Psp6I	CCWGG	1 cut(s)	827
PspGI	CCWGG	1 cut(s)	827
PspLI	CGTACG	1 cut(s)	509
PspN4I	GGNNCC	1 cut(s)	577
PspPI	GGNCC	1 cut(s)	909
RsaI	GTAC	3 cut(s)	212, 397, 511
RsaNI	GTAC	3 cut(s)	211, 396, 510
RseI	CAYNNNNRTG	2 cut(s)	354, 858
SacI	GAGCTC	1 cut(s)	666
SapI	GCTCTTC	2 cut(s)	184, 498
SaqAI	TTAA	2 cut(s)	264, 719
SatI	GCNGC	1 cut(s)	597
Sau96I	GGNCC	1 cut(s)	909
SchI	GAGTC	1 cut(s)	464
ScrFI	CCNGG	1 cut(s)	829
SduI	GDGCHC	2 cut(s)	149, 666
SfaNI	GCATC	2 cut(s)	203, 810
Sfr274I	CTCGAG	1 cut(s)	125
SinI	GGWCC	1 cut(s)	909
SlaI	CTCGAG	1 cut(s)	125
SmiMI	CAYNNNNRTG	2 cut(s)	354, 858
SmlI	CTYRAG	1 cut(s)	125
SmoI	CTYRAG	1 cut(s)	125
SnaBI	TACGTA	1 cut(s)	103
Sse9I	AATT	3 cut(s)	241, 716, 900
SseBI	AGGCCT	1 cut(s)	95
SsiI	CCGC	3 cut(s)	292, 326, 613
SspMI	CTAG	2 cut(s)	308, 837
SstI	GAGCTC	1 cut(s)	666
StuI	AGGCCT	1 cut(s)	95
StyD4I	CCNGG	1 cut(s)	827
StyI	CCWWGG	2 cut(s)	846, 912
TaaI	ACNGT	1 cut(s)	499
TaiI	ACGT	1 cut(s)	105
TaqI	TCGA	1 cut(s)	126
TasI	AATT	3 cut(s)	241, 716, 900
TatI	WGTACW	1 cut(s)	210
TfiI	GAWTC	6 cut(s)	29, 182, 581, 635, 652, 918
Tru1I	TTAA	2 cut(s)	264, 719
Tru9I	TTAA	2 cut(s)	264, 719
TscAI	CASTG	2 cut(s)	74, 860
TseI	GCWGC	1 cut(s)	596
TspDTI	ATGAA	6 cut(s)	17, 251, 380, 747, 762, 786
TspGWI	ACGGA	1 cut(s)	389
TspRI	CASTG	2 cut(s)	74, 860
VpaK11BI	GGWCC	1 cut(s)	909
XapI	RAATTY	1 cut(s)	900
XhoI	CTCGAG	1 cut(s)	125
XmiI	GTMKAC	1 cut(s)	755
XspI	CTAG	2 cut(s)	308, 837
Zsp2I	ATGCAT	1 cut(s)	732

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