Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5A

Orthogroup ID

OG0000649

Physical Location & Seq

Genomic Coordinates Reverse (-)

63856944 .. 63915282

Gene Structure 58339 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5AG375500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 885 bp

ATGGCAACCGAAGAACCGGAGAAAGTCCCTGCCGACGAAATCAAATCGATGTCGATCGCTGACTCTGAGTCGCAAGACCAGCCCGCAAGCTCGTCCAGTCCATCTGTCCAATTGAGTCTGGATGAGAGGTACAACCTACTTAGGAGCATCGCGGAGGAGTGTATCCTAGAAGAAGAGCTCAAGAATTTGCTGGATAAGAAGGCCGAGCCGATCTGCTACGACGGCTTTGAGCCCTCCGGTAGAATGCATATTGCTCAGGGAGTTTTGAAGGCAATTAATGTGAACAAGATGATTGCCGCAGGCTGCAGAGTGAAGATATGGATTGCCGATTGGTTTGCGCAGCTAAACAATAAGATGGGGGGTGATTTGAACAAGATTGAGACTGTGGGGAAGTATTTTATTGAGATATGGAGGTCTGTGGGGATGAATCTGGACAGTGGGAAAGTTGAGTTTTTGTGGTCTTCTAAGGAGATCAATGCCAGGTCACATGAGTACTGGCCGCGTGTAATGGATATTGCCCGGAAAAACAAGCTTTCGAGGATCATTAGGTGTAGTCAAATTATGGGTCGTACAGATCAAGAAGAGTTAACTGCTGCCCAGATCCTCTACCCGTGTATGCAATGTGCAGATATTTTCTTCCTGCAGGCTGACATCTGTCAACTCGGTATGGATCAACGTAAAGTGAATGTGCTCGCACGAGAGTACTGTGATGACATCAAGAAGAAAAACAAGCCTATTATCTTGTCACACCTTGATGGACTAAGAATGAGTAGTGAATTAATTACTCCAGCAAAATGGAAAATGATACAACATAGAACTCACCTTTCTGTACTTGTGATATTGGGAATTAAACCTCGTCGATCAATCCAACTTTCTGATGCATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000166 GO:0003674 GO:0003824 GO:0004812 GO:0004831 GO:0005488 GO:0005515 GO:0005524 GO:0006082 GO:0006139 GO:0006399 GO:0006412 GO:0006418 GO:0006437 GO:0006518 GO:0006520 GO:0006725 GO:0006807 GO:0008144 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009987 GO:0010467 GO:0016070 GO:0016597 GO:0016874 GO:0016875 GO:0017076 GO:0019538 GO:0019752 GO:0030554 GO:0031406 GO:0032553 GO:0032555 GO:0032559 GO:0034641 GO:0034645 GO:0034660 GO:0035639 GO:0036094 GO:0042802 GO:0042803 GO:0043038 GO:0043039 GO:0043043 GO:0043167 GO:0043168 GO:0043169 GO:0043170 GO:0043177 GO:0043436 GO:0043603 GO:0043604 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044267 GO:0044271 GO:0044281 GO:0046483 GO:0046983 GO:0071704 GO:0072545 GO:0090304 GO:0097159 GO:0097367 GO:0140098 GO:0140101 GO:1901265 GO:1901360 GO:1901363 GO:1901564 GO:1901566 GO:1901576

KEGG Pathways

Metabolic & Signaling

ko00970 map00970

Pfam Domains

Protein Families

tRNA-synt_1b

Protein Analysis

294

Amino Acids

33.47

Weight (kDa)

6.95

Isoelectric Point (pI)

63.35

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
tRNA-synt_1b	PF00579	67 - 250	4.7e-37	tRNA synthetases class I (W and Y)

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)

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Tree File

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Publication-ready

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Orthologous Genes (Group: OG0000649)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G33840
fragaria_vesca	FvH4_2g00190 FvH4_4g18133 FvH4_4g36450 FvH4_5g02490 FvH4_5g35150 FvH4_6g35840
malus_domestica	MD04G1034100.v1.1 MD06G1084100.v1.1
prunus_persica	Prupe.2G139100_v2.0.a1 Prupe.5G096900_v2.0.a1 Prupe.5G096900_v2.0.a1 Prupe.5G100500_v2.0.a1 Prupe.5G100500_v2.0.a1 Prupe.5G100500_v2.0.a1
pyrus_communis	pycom04g02850
rosa_chinensis	RchiOBHm_Chr1g0324941 RchiOBHm_Chr1g0340751 RchiOBHm_Chr2g0133721 RchiOBHm_Chr2g0153921 RchiOBHm_Chr4g0396761 RchiOBHm_Chr4g0414291 RchiOBHm_Chr4g0429871 RchiOBHm_Chr4g0446211 RchiOBHm_Chr5g0057181 RchiOBHm_Chr5g0057391 RchiOBHm_Chr5g0077561 RchiOBHm_Chr6g0307121 RchiOBHm_Chr7g0197611
rosa_laevigata	RLG00000003922 RLG00000005681 RLG00000017313 RLG00000029149 RLG00000035152
rosa_multiflora	Rmu_co8043936.1_g000001 Rmu_sc0001164.1_g000009 Rmu_sc0001334.1_g000004 Rmu_sc0004952.1_g000011 Rmu_sc0013154.1_g000007 Rmu_sc0017650.1_g000006 Rmu_sc0018062.1_g000003
rosa_roxburghii	Rroxscaffold_1G00023030 Rroxscaffold_2G00094650 Rroxscaffold_3G00223000 Rroxscaffold_3G00232150 Rroxscaffold_3G00248030 Rroxscaffold_3G00248040 Rroxscaffold_3G00258320
rosa_rugosa	Rorug04G0184600 Rorug04G0368500 Rorug05G0306000 Rorug05G0307100 Rorug07G0041900
rosa_samantha	Rh2CG164400 Rh2DG389300 Rh3AG306800 Rh4AG430600 Rh4BG440000 Rh4CG457300 Rh4DG438500 Rh5AG375500 Rh5BG386300 Rh5CG409700 Rh5DG400300 Rh6CG481100 Rh7AG166300 Rh7AG360600 Rh7BG168400 Rh7CG174700 Rh7DG168000 Rh7DG387600
rosa_wichuraiana	Rw2G022790 Rw4G036780 Rw5G035320 Rw5G035460 Rw7G014480 Rw7G038030

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	339
AccII	CGCG	2 cut(s)	152, 502
AciI	CCGC	4 cut(s)	84, 152, 297, 500
AclWI	GGATC	3 cut(s)	548, 595, 678
AcoI	YGGCCR	1 cut(s)	497
AcsI	RAATTY	1 cut(s)	184
AfaI	GTAC	5 cut(s)	131, 494, 571, 704, 831
AgsI	TTSAA	2 cut(s)	268, 370
AhdI	GACNNNNNGTC	1 cut(s)	67
AjnI	CCWGG	1 cut(s)	479
AluBI	AGCT	4 cut(s)	90, 178, 343, 532
AluI	AGCT	4 cut(s)	90, 178, 343, 532
Alw21I	GWGCWC	2 cut(s)	180, 693
Alw26I	GTCTC	1 cut(s)	374
AlwI	GGATC	3 cut(s)	548, 595, 678
AoxI	GGCC	2 cut(s)	201, 497
ApeKI	GCWGC	3 cut(s)	303, 340, 593
ApoI	RAATTY	1 cut(s)	184
ArsI	GACNNNNNNTTYG	2 cut(s)	550, 582
AseI	ATTAAT	2 cut(s)	276, 779
AspLEI	GCGC	1 cut(s)	340
AsuC2I	CCSGG	1 cut(s)	520
AsuHPI	GGTGA	2 cut(s)	374, 812
BanII	GRGCYC	2 cut(s)	180, 234
BauI	CACGAG	1 cut(s)	696
BbsI	GAAGAC	1 cut(s)	453
Bbv12I	GWGCWC	2 cut(s)	180, 693
BbvI	GCAGC	3 cut(s)	290, 352, 580
BccI	CCATC	3 cut(s)	109, 349, 749
BceAI	ACGGC	1 cut(s)	238
BcgI	CGANNNNNNTGC	2 cut(s)	317, 351
BciT130I	CCWGG	1 cut(s)	481
BciVI	GTATCC	1 cut(s)	173
BcnI	CCSGG	1 cut(s)	520
BcoDI	GTCTC	1 cut(s)	374
BfaI	CTAG	1 cut(s)	167
BfmI	CTRYAG	2 cut(s)	304, 641
BfuI	GTATCC	1 cut(s)	173
BisI	GCNGC	5 cut(s)	297, 304, 341, 500, 594
BlsI	GCNGC	5 cut(s)	298, 305, 342, 501, 595
BmcAI	AGTACT	2 cut(s)	494, 704
Bme1390I	CCNGG	2 cut(s)	481, 520
BmeRI	GACNNNNNGTC	1 cut(s)	67
BmrFI	CCNGG	2 cut(s)	481, 520
BmsI	GCATC	2 cut(s)	156, 868
BoxI	GACNNNNGTC	1 cut(s)	654
BpiI	GAAGAC	1 cut(s)	453
BpmI	CTGGAG	1 cut(s)	771
Bpu10I	CCTNAGC	1 cut(s)	255
BpuEI	CTTGAG	1 cut(s)	164
BpuMI	CCSGG	1 cut(s)	520
Bsa29I	ATCGAT	1 cut(s)	47
BsaBI	GATNNNNATC	1 cut(s)	53
BsaWI	WCCGGW	2 cut(s)	16, 236
Bse1I	ACTGG	2 cut(s)	96, 500
Bse3DI	GCAATG	1 cut(s)	626
Bse8I	GATNNNNATC	1 cut(s)	53
BseBI	CCWGG	1 cut(s)	481
BseCI	ATCGAT	1 cut(s)	47
BseGI	GGATG	2 cut(s)	127, 429
BseJI	GATNNNNATC	1 cut(s)	53
BseMI	GCAATG	1 cut(s)	626
BseMII	CTCAG	2 cut(s)	57, 269
BseNI	ACTGG	2 cut(s)	96, 500
BseRI	GAGGAG	1 cut(s)	170
BseXI	GCAGC	3 cut(s)	290, 352, 580
BsgI	GTGCAG	1 cut(s)	645
Bsh1236I	CGCG	2 cut(s)	152, 502
Bsh1285I	CGRYCG	1 cut(s)	57
BshFI	GGCC	2 cut(s)	203, 499
BshVI	ATCGAT	1 cut(s)	47
BsiEI	CGRYCG	1 cut(s)	57
BsiHKAI	GWGCWC	2 cut(s)	180, 693
BsiSI	CCGG	3 cut(s)	17, 237, 520
BslFI	GGGAC	1 cut(s)	11
BsmAI	GTCTC	1 cut(s)	374
BsmFI	GGGAC	1 cut(s)	11
BsmI	GAATGC	1 cut(s)	249
BsnI	GGCC	2 cut(s)	203, 499
Bsp1286I	GDGCHC	3 cut(s)	180, 234, 693
Bsp143I	GATC	8 cut(s)	54, 210, 471, 540, 574, 600, 670, 860
BspACI	CCGC	4 cut(s)	84, 152, 297, 500
BspANI	GGCC	2 cut(s)	203, 499
BspCNI	CTCAG	2 cut(s)	58, 268
BspDI	ATCGAT	1 cut(s)	47
BspFNI	CGCG	2 cut(s)	152, 502
BspMAI	CTGCAG	2 cut(s)	308, 645
BspPI	GGATC	3 cut(s)	548, 595, 678
BspQI	GCTCTTC	1 cut(s)	168
BsrDI	GCAATG	1 cut(s)	626
BsrI	ACTGG	2 cut(s)	96, 500
BssMI	GATC	8 cut(s)	54, 210, 471, 540, 574, 600, 670, 860
BssSI	CACGAG	1 cut(s)	696
Bst2BI	CACGAG	1 cut(s)	696
Bst2UI	CCWGG	1 cut(s)	481
Bst4CI	ACNGT	3 cut(s)	385, 437, 707
Bst6I	CTCTTC	2 cut(s)	168, 576
BstC8I	GCNNGC	5 cut(s)	84, 88, 301, 645, 693
BstDEI	CTNAG	5 cut(s)	66, 140, 255, 465, 761
BstF5I	GGATG	2 cut(s)	127, 429
BstFNI	CGCG	2 cut(s)	152, 502
BstHHI	GCGC	1 cut(s)	340
BstKTI	GATC	8 cut(s)	57, 213, 474, 543, 577, 603, 673, 863
BstMAI	GTCTC	1 cut(s)	374
BstMBI	GATC	8 cut(s)	54, 210, 471, 540, 574, 600, 670, 860
BstMCI	CGRYCG	1 cut(s)	57
BstMWI	GCNNNNNNNGC	2 cut(s)	79, 222
BstNI	CCWGG	1 cut(s)	481
BstPAI	GACNNNNGTC	1 cut(s)	654
BstSCI	CCNGG	2 cut(s)	479, 518
BstSFI	CTRYAG	2 cut(s)	304, 641
BstUI	CGCG	2 cut(s)	152, 502
BstV1I	GCAGC	3 cut(s)	290, 352, 580
BstV2I	GAAGAC	1 cut(s)	453
BstX2I	RGATCY	1 cut(s)	600
BstXI	CCANNNNNNTGG	1 cut(s)	795
BstYI	RGATCY	1 cut(s)	600
Bsu15I	ATCGAT	1 cut(s)	47
BsuI	GTATCC	1 cut(s)	173
BsuRI	GGCC	2 cut(s)	203, 499
BsuTUI	ATCGAT	1 cut(s)	47
BtgZI	GCGATG	1 cut(s)	133
BtsCI	GGATG	2 cut(s)	127, 429
BtsIMutI	CAGTG	1 cut(s)	442
Cac8I	GCNNGC	5 cut(s)	84, 88, 301, 645, 693
CfoI	GCGC	1 cut(s)	340
ClaI	ATCGAT	1 cut(s)	47
Csp6I	GTAC	5 cut(s)	130, 493, 570, 703, 830
CviAII	CATG	1 cut(s)	488
CviQI	GTAC	5 cut(s)	130, 493, 570, 703, 830
DdeI	CTNAG	5 cut(s)	66, 140, 255, 465, 761
DpnI	GATC	8 cut(s)	56, 212, 473, 542, 576, 602, 672, 862
DpnII	GATC	8 cut(s)	54, 210, 471, 540, 574, 600, 670, 860
DriI	GACNNNNNGTC	1 cut(s)	67
EaeI	YGGCCR	1 cut(s)	497
Eam1104I	CTCTTC	2 cut(s)	168, 576
Eam1105I	GACNNNNNGTC	1 cut(s)	67
EarI	CTCTTC	2 cut(s)	168, 576
Ecl136II	GAGCTC	1 cut(s)	178
Eco24I	GRGCYC	2 cut(s)	180, 234
Eco53kI	GAGCTC	1 cut(s)	178
EcoICRI	GAGCTC	1 cut(s)	178
EcoRII	CCWGG	1 cut(s)	479
EcoT22I	ATGCAT	2 cut(s)	249, 883
EcoT38I	GRGCYC	2 cut(s)	180, 234
FaeI	CATG	1 cut(s)	491
FaiI	YATR	9 cut(s)	249, 319, 409, 489, 563, 617, 668, 813, 883
FaqI	GGGAC	1 cut(s)	11
FatI	CATG	1 cut(s)	487
FauI	CCCGC	1 cut(s)	91
Fnu4HI	GCNGC	5 cut(s)	297, 304, 341, 500, 594
FokI	GGATG	2 cut(s)	134, 436
FriOI	GRGCYC	2 cut(s)	180, 234
Fsp4HI	GCNGC	5 cut(s)	297, 304, 341, 500, 594
FspBI	CTAG	1 cut(s)	167
FspI	TGCGCA	1 cut(s)	339
GlaI	GCGC	1 cut(s)	339
GluI	GCNGC	5 cut(s)	297, 304, 341, 500, 594
GsuI	CTGGAG	1 cut(s)	771
HaeIII	GGCC	2 cut(s)	203, 499
HapII	CCGG	3 cut(s)	17, 237, 520
HhaI	GCGC	1 cut(s)	340
Hin1II	CATG	1 cut(s)	491
Hin6I	GCGC	1 cut(s)	338
HinP1I	GCGC	1 cut(s)	338
HincII	GTYRAC	2 cut(s)	588, 659
HindII	GTYRAC	2 cut(s)	588, 659
HindIII	AAGCTT	1 cut(s)	530
HinfI	GANTC	4 cut(s)	62, 68, 115, 427
HpaI	GTTAAC	1 cut(s)	588
HpaII	CCGG	3 cut(s)	17, 237, 520
HphI	GGTGA	2 cut(s)	374, 812
Hpy166II	GTNNAC	3 cut(s)	283, 588, 659
Hpy188I	TCNGA	2 cut(s)	67, 877
Hpy188III	TCNNGA	5 cut(s)	119, 181, 431, 578, 718
Hpy8I	GTNNAC	3 cut(s)	283, 588, 659
Hpy99I	CGWCG	3 cut(s)	38, 224, 861
HpyAV	CCTTC	2 cut(s)	193, 262
HpyCH4III	ACNGT	3 cut(s)	385, 437, 707
HpyCH4IV	ACGT	1 cut(s)	676
HpyCH4V	TGCA	6 cut(s)	247, 306, 619, 626, 643, 881
HpyF10VI	GCNNNNNNNGC	2 cut(s)	79, 222
HpyF3I	CTNAG	5 cut(s)	66, 140, 255, 465, 761
HpySE526I	ACGT	1 cut(s)	676
Hsp92II	CATG	1 cut(s)	491
HspAI	GCGC	1 cut(s)	338
KspAI	GTTAAC	1 cut(s)	588
Kzo9I	GATC	8 cut(s)	54, 210, 471, 540, 574, 600, 670, 860
LguI	GCTCTTC	1 cut(s)	168
LmnI	GCTCC	1 cut(s)	144
Lsp1109I	GCAGC	3 cut(s)	290, 352, 580
LweI	GCATC	2 cut(s)	156, 868
MaeI	CTAG	1 cut(s)	167
MaeII	ACGT	1 cut(s)	676
MaeIII	GTNAC	2 cut(s)	483, 744
MalI	GATC	8 cut(s)	56, 212, 473, 542, 576, 602, 672, 862
MboI	GATC	8 cut(s)	54, 210, 471, 540, 574, 600, 670, 860
MboII	GAAGA	8 cut(s)	23, 182, 185, 325, 453, 593, 628, 733
MfeI	CAATTG	1 cut(s)	110
MflI	RGATCY	1 cut(s)	600
MhlI	GDGCHC	3 cut(s)	180, 234, 693
MluCI	AATT	7 cut(s)	110, 184, 273, 558, 776, 780, 846
MlyI	GAGTC	3 cut(s)	56, 77, 124
MnlI	CCTC	7 cut(s)	120, 148, 244, 405, 531, 614, 864
Mph1103I	ATGCAT	2 cut(s)	249, 883
MseI	TTAA	4 cut(s)	276, 587, 779, 849
MslI	CAYNNNNRTG	1 cut(s)	753
MspI	CCGG	3 cut(s)	17, 237, 520
MspR9I	CCNGG	2 cut(s)	481, 520
MunI	CAATTG	1 cut(s)	110
Mva1269I	GAATGC	1 cut(s)	249
MvaI	CCWGG	1 cut(s)	481
MvnI	CGCG	2 cut(s)	152, 502
MwoI	GCNNNNNNNGC	2 cut(s)	79, 222
NciI	CCSGG	1 cut(s)	520
NdeII	GATC	8 cut(s)	54, 210, 471, 540, 574, 600, 670, 860
NlaIII	CATG	1 cut(s)	491
NmeAIII	GCCGAG	1 cut(s)	229
NmuCI	GTSAC	2 cut(s)	483, 744
NsbI	TGCGCA	1 cut(s)	339
NsiI	ATGCAT	2 cut(s)	249, 883
PciSI	GCTCTTC	1 cut(s)	168
PctI	GAATGC	1 cut(s)	249
PfeI	GAWTC	1 cut(s)	427
PkrI	GCNGC	5 cut(s)	298, 305, 342, 501, 595
Ple19I	CGATCG	1 cut(s)	57
PleI	GAGTC	3 cut(s)	56, 76, 123
PpsI	GAGTC	3 cut(s)	56, 76, 123
PshAI	GACNNNNGTC	1 cut(s)	654
PshBI	ATTAAT	2 cut(s)	276, 779
Psp124BI	GAGCTC	1 cut(s)	180
Psp6I	CCWGG	1 cut(s)	479
PspGI	CCWGG	1 cut(s)	479
PstI	CTGCAG	2 cut(s)	308, 645
PsuI	RGATCY	1 cut(s)	600
PvuI	CGATCG	1 cut(s)	57
RsaI	GTAC	5 cut(s)	131, 494, 571, 704, 831
RsaNI	GTAC	5 cut(s)	130, 493, 570, 703, 830
RseI	CAYNNNNRTG	1 cut(s)	753
SacI	GAGCTC	1 cut(s)	180
SapI	GCTCTTC	1 cut(s)	168
SaqAI	TTAA	4 cut(s)	276, 587, 779, 849
SatI	GCNGC	5 cut(s)	297, 304, 341, 500, 594
Sau3AI	GATC	8 cut(s)	54, 210, 471, 540, 574, 600, 670, 860
SbfI	CCTGCAGG	1 cut(s)	645
ScaI	AGTACT	2 cut(s)	494, 704
SchI	GAGTC	3 cut(s)	56, 77, 124
ScrFI	CCNGG	2 cut(s)	481, 520
SdaI	CCTGCAGG	1 cut(s)	645
SduI	GDGCHC	3 cut(s)	180, 234, 693
SfaNI	GCATC	2 cut(s)	156, 868
SfcI	CTRYAG	2 cut(s)	304, 641
SmiMI	CAYNNNNRTG	1 cut(s)	753
SmlI	CTYRAG	1 cut(s)	179
SmoI	CTYRAG	1 cut(s)	179
Sse8387I	CCTGCAGG	1 cut(s)	645
Sse9I	AATT	7 cut(s)	110, 184, 273, 558, 776, 780, 846
SsiI	CCGC	4 cut(s)	84, 152, 297, 500
SspMI	CTAG	1 cut(s)	167
SstI	GAGCTC	1 cut(s)	180
StyD4I	CCNGG	2 cut(s)	479, 518
TaaI	ACNGT	3 cut(s)	385, 437, 707
TaiI	ACGT	1 cut(s)	679
TaqI	TCGA	4 cut(s)	47, 53, 536, 859
TasI	AATT	7 cut(s)	110, 184, 273, 558, 776, 780, 846
TatI	WGTACW	3 cut(s)	492, 702, 829
TauI	GCSGC	2 cut(s)	299, 502
TfiI	GAWTC	1 cut(s)	427
Tru1I	TTAA	4 cut(s)	276, 587, 779, 849
Tru9I	TTAA	4 cut(s)	276, 587, 779, 849
TscAI	CASTG	1 cut(s)	442
TseFI	GTSAC	2 cut(s)	483, 744
TseI	GCWGC	3 cut(s)	303, 340, 593
Tsp45I	GTSAC	2 cut(s)	483, 744
TspDTI	ATGAA	1 cut(s)	440
TspRI	CASTG	1 cut(s)	442
VspI	ATTAAT	2 cut(s)	276, 779
XapI	RAATTY	1 cut(s)	184
XspI	CTAG	1 cut(s)	167
ZrmI	AGTACT	2 cut(s)	494, 704
Zsp2I	ATGCAT	2 cut(s)	249, 883

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