Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2C

Orthogroup ID

OG0007871

Physical Location & Seq

Genomic Coordinates Reverse (-)

79222963 .. 79224714

Gene Structure 1752 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2CG616100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 990 bp

ATGCTTGAAATTCAGTTCAAAATTTTTCTTTTTTTTTCAGATTTTTTGAGGATGTTGCCTGTTGAATCTGCAAAGAAGAAGCTATCTTTCACAAGATGTATTCAAGATGGGGATTTGGTTATTGTGTATGAGAGATATGATAACATGAAGGCTGTTAAAGTGTGTGAGGGTTCTGTGCTTGAGAATCGGTTTGGTGTGTTTAAGCATTCGGATTGGATAGGGAAGCAATTTGGGTCCAAGGTTTTCAGCAGCAAAGGTGGATTTGTTTACTTGTTGGCTCCGACTCCAGAGCTATGGACTTTGGTTCTGAGTCACAGGACGCAGATTCTCTACATTGCTGATATTAGCTTTGTGATCATGTTCTTGGAGATAGTTCCTGGCTGTGTGGTTCTGGAGTCGGGGACTGGAAGTGGGTCCTTAACTACGTCACTTGCAAGGGCTGTGGCTCCTAAGGGACATGTGTATACATTTGATTTCCATGAGCAAAGGGCTGCCTCGGCTAGGGAGGACTTTGAAAAGACGGGGATAAGCAACACGGTCACAGTAGGAGTTAGAGATATTCAGGGTGAAGGTTTTCCAGATGAGTTTTCTGGGAGGGCAGATTCTGTCTTCCTGGACCTTCCCCAACCCTGGCTAGCCATCCCTTCAGTTGAGAAAATGTTAAAACAAGATGGGATTGTATGCTCCTTTTCCCCGTGCATTGAGCAGGTGCAGCGAGCATCGGAGACTTTGAGATCAAAGTTTACAGATATAAGGACATTTGAGATACTCCTTCGCACATATGAAGTTCGAGAAGGGAAAATGGATAGCTTCCAGGTCGAGGAAAGTGGTTCTGTTGGATCTCTACCATGTAAGAGGCGGCAACGATTGAGTGAAGGAAGTAATGAGCAGGAAACTACAAGCGCTTCCGTAGTCATGGCTAGGCCATGTAGTGAGGCCAAAGGCCACACTGGCTATTTGACATTTGCAAGACTCAAATGCCTGTCATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001510 GO:0003674 GO:0003824 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0008168 GO:0008173 GO:0008174 GO:0008757 GO:0009451 GO:0009987 GO:0016070 GO:0016071 GO:0016556 GO:0016740 GO:0016741 GO:0031515 GO:0032259 GO:0032991 GO:0034641 GO:0034708 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0043414 GO:0043527 GO:0044237 GO:0044238 GO:0044260 GO:0044424 GO:0044444 GO:0044464 GO:0046483 GO:0061953 GO:0071704 GO:0080009 GO:0090304 GO:0140098 GO:1901360 GO:1902494 GO:1990234

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

GCD14

Protein Analysis

329

Amino Acids

36.83

Weight (kDa)

6.55

Isoelectric Point (pI)

34.29

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
GCD14	PF08704	87 - 324	2e-100	tRNA methyltransferase complex GCD14 subunit
PCMT	PF01135	116 - 184	6.4e-06	Protein-L-isoaspartate(D-aspartate) O-methyltransferase (PCMT)
Methyltransf_31	PF13847	126 - 248	1.5e-10	Methyltransferase domain
Methyltransf_25	PF13649	130 - 205	3e-06	Methyltransferase domain

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: OG0007871)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G14600
fragaria_vesca	FvH4_6g51011 FvH4_6g51011 FvH4_6g51011
malus_domestica	MD09G1029500.v1.1 MD17G1031500.v1.1
prunus_persica	Prupe.3G287900_v2.0.a1
pyrus_communis	pycom111g02350 pycom17g02900
rosa_chinensis	RchiOBHm_Chr2g0172551
rosa_laevigata	RLG00000002839 RLG00000016014 RLG00000021671 RLG00000022115
rosa_multiflora	Rmu_sc0000912.1_g000006
rosa_roxburghii	Rroxscaffold_2G00079770
rosa_rugosa	Rorug02G0559800
rosa_samantha	Rh2AG635900 Rh2BG649300 Rh2CG616100 Rh2DG663700 Rh3AG202500 Rh3DG228000
rosa_wichuraiana	Rw2G052610

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	697
Acc36I	ACCTGC	1 cut(s)	697
AccI	GTMKAC	1 cut(s)	464
AciI	CCGC	1 cut(s)	859
AclWI	GGATC	1 cut(s)	847
AcsI	RAATTY	2 cut(s)	9, 21
AcuI	CTGAAG	1 cut(s)	630
AfeI	AGCGCT	1 cut(s)	904
AfiI	CCNNNNNNNGG	3 cut(s)	501, 630, 820
AflIII	ACRYGT	1 cut(s)	457
AgsI	TTSAA	5 cut(s)	8, 19, 65, 104, 515
AjnI	CCWGG	4 cut(s)	376, 612, 629, 813
AluBI	AGCT	4 cut(s)	82, 292, 348, 810
AluI	AGCT	4 cut(s)	82, 292, 348, 810
Alw26I	GTCTC	1 cut(s)	719
AlwI	GGATC	1 cut(s)	847
AlwNI	CAGNNNCTG	1 cut(s)	605
Aor51HI	AGCGCT	1 cut(s)	904
AoxI	GGCC	3 cut(s)	923, 936, 943
ApeKI	GCWGC	3 cut(s)	249, 491, 712
ApoI	RAATTY	2 cut(s)	9, 21
Asp700I	GAANNNNTTC	1 cut(s)	573
AspLEI	GCGC	1 cut(s)	905
AspS9I	GGNCC	3 cut(s)	234, 414, 616
AsuHPI	GGTGA	1 cut(s)	578
AsuNHI	GCTAGC	1 cut(s)	634
AvaII	GGWCC	3 cut(s)	234, 414, 616
AxyI	CCTNAGG	1 cut(s)	450
BbsI	GAAGAC	1 cut(s)	601
BbvI	GCAGC	3 cut(s)	261, 478, 724
BccI	CCATC	3 cut(s)	101, 647, 665
BciT130I	CCWGG	4 cut(s)	378, 614, 631, 815
BclI	TGATCA	1 cut(s)	354
BcoDI	GTCTC	1 cut(s)	719
BfaI	CTAG	3 cut(s)	501, 635, 921
BfoI	RGCGCY	1 cut(s)	906
BfuAI	ACCTGC	1 cut(s)	697
BglI	GCCNNNNNGGC	1 cut(s)	951
BisI	GCNGC	4 cut(s)	250, 492, 713, 860
BlsI	GCNGC	4 cut(s)	251, 493, 714, 861
Bme1390I	CCNGG	4 cut(s)	378, 614, 631, 815
Bme18I	GGWCC	3 cut(s)	234, 414, 616
BmgT120I	GGNCC	3 cut(s)	234, 414, 616
BmiI	GGNNCC	4 cut(s)	235, 279, 415, 447
BmrFI	CCNGG	4 cut(s)	378, 614, 631, 815
BmsI	GCATC	1 cut(s)	728
BmtI	GCTAGC	1 cut(s)	638
BpiI	GAAGAC	1 cut(s)	601
BpmI	CTGGAG	2 cut(s)	270, 413
BpuEI	CTTGAG	1 cut(s)	200
BsaJI	CCNNGG	3 cut(s)	237, 495, 629
Bsc4I	CCNNNNNNNGG	3 cut(s)	501, 630, 820
Bse1I	ACTGG	2 cut(s)	409, 955
Bse21I	CCTNAGG	1 cut(s)	450
Bse3DI	GCAATG	1 cut(s)	333
BseBI	CCWGG	4 cut(s)	378, 614, 631, 815
BseDI	CCNNGG	3 cut(s)	237, 495, 629
BseGI	GGATG	2 cut(s)	57, 639
BseLI	CCNNNNNNNGG	3 cut(s)	501, 630, 820
BseMI	GCAATG	1 cut(s)	333
BseMII	CTCAG	1 cut(s)	299
BseNI	ACTGG	2 cut(s)	409, 955
BseXI	GCAGC	3 cut(s)	261, 478, 724
BsgI	GTGCAG	1 cut(s)	731
BshFI	GGCC	3 cut(s)	925, 938, 945
BslFI	GGGAC	2 cut(s)	415, 468
BslI	CCNNNNNNNGG	3 cut(s)	501, 630, 820
BsmAI	GTCTC	1 cut(s)	719
BsmFI	GGGAC	2 cut(s)	415, 468
BsmI	GAATGC	1 cut(s)	205
BsnI	GGCC	3 cut(s)	925, 938, 945
Bsp143I	GATC	3 cut(s)	354, 734, 839
BspACI	CCGC	1 cut(s)	859
BspANI	GGCC	3 cut(s)	925, 938, 945
BspCNI	CTCAG	1 cut(s)	300
BspLI	GGNNCC	4 cut(s)	235, 279, 415, 447
BspMI	ACCTGC	1 cut(s)	697
BspOI	GCTAGC	1 cut(s)	638
BspPI	GGATC	1 cut(s)	847
BsrDI	GCAATG	1 cut(s)	333
BsrI	ACTGG	2 cut(s)	409, 955
BssECI	CCNNGG	3 cut(s)	237, 495, 629
BssMI	GATC	3 cut(s)	354, 734, 839
BssNAI	GTATAC	1 cut(s)	465
BssT1I	CCWWGG	1 cut(s)	237
Bst1107I	GTATAC	1 cut(s)	465
Bst2UI	CCWGG	4 cut(s)	378, 614, 631, 815
Bst4CI	ACNGT	2 cut(s)	538, 544
BstC8I	GCNNGC	2 cut(s)	636, 717
BstDEI	CTNAG	2 cut(s)	308, 450
BstENI	CCTNNNNNAGG	1 cut(s)	499
BstF5I	GGATG	2 cut(s)	57, 639
BstH2I	RGCGCY	1 cut(s)	906
BstHHI	GCGC	1 cut(s)	905
BstKTI	GATC	3 cut(s)	357, 737, 842
BstMAI	GTCTC	1 cut(s)	719
BstMBI	GATC	3 cut(s)	354, 734, 839
BstMWI	GCNNNNNNNGC	3 cut(s)	497, 712, 951
BstNI	CCWGG	4 cut(s)	378, 614, 631, 815
BstNSI	RCATGY	1 cut(s)	461
BstSCI	CCNGG	4 cut(s)	376, 612, 629, 813
BstV1I	GCAGC	3 cut(s)	261, 478, 724
BstV2I	GAAGAC	1 cut(s)	601
BstX2I	RGATCY	1 cut(s)	839
BstXI	CCANNNNNNTGG	1 cut(s)	294
BstYI	RGATCY	1 cut(s)	839
BstZ17I	GTATAC	1 cut(s)	465
Bsu36I	CCTNAGG	1 cut(s)	450
BsuRI	GGCC	3 cut(s)	925, 938, 945
BtsCI	GGATG	2 cut(s)	57, 639
BtsIMutI	CAGTG	1 cut(s)	948
BveI	ACCTGC	1 cut(s)	697
Cac8I	GCNNGC	2 cut(s)	636, 717
CaiI	CAGNNNCTG	1 cut(s)	605
CfoI	GCGC	1 cut(s)	905
Cfr13I	GGNCC	3 cut(s)	234, 414, 616
CseI	GACGC	1 cut(s)	328
CspCI	CAANNNNNGTGG	2 cut(s)	423, 458
CviAII	CATG	7 cut(s)	145, 358, 458, 479, 849, 916, 927
DdeI	CTNAG	2 cut(s)	308, 450
DpnI	GATC	3 cut(s)	356, 736, 841
DpnII	GATC	3 cut(s)	354, 734, 839
Eco130I	CCWWGG	1 cut(s)	237
Eco47I	GGWCC	3 cut(s)	234, 414, 616
Eco47III	AGCGCT	1 cut(s)	904
Eco57I	CTGAAG	1 cut(s)	630
Eco81I	CCTNAGG	1 cut(s)	450
EcoNI	CCTNNNNNAGG	1 cut(s)	499
EcoO109I	RGGNCCY	1 cut(s)	414
EcoRII	CCWGG	4 cut(s)	376, 612, 629, 813
EcoT14I	CCWWGG	1 cut(s)	237
ErhI	CCWWGG	1 cut(s)	237
FaeI	CATG	7 cut(s)	148, 361, 461, 482, 852, 919, 930
FaqI	GGGAC	2 cut(s)	415, 468
FatI	CATG	7 cut(s)	144, 357, 457, 478, 848, 915, 926
FauNDI	CATATG	1 cut(s)	781
FbaI	TGATCA	1 cut(s)	354
FblI	GTMKAC	1 cut(s)	464
Fnu4HI	GCNGC	4 cut(s)	250, 492, 713, 860
FokI	GGATG	2 cut(s)	64, 626
Fsp4HI	GCNGC	4 cut(s)	250, 492, 713, 860
FspBI	CTAG	3 cut(s)	501, 635, 921
GlaI	GCGC	1 cut(s)	904
GluI	GCNGC	4 cut(s)	250, 492, 713, 860
GsuI	CTGGAG	2 cut(s)	270, 413
HaeII	RGCGCY	1 cut(s)	906
HaeIII	GGCC	3 cut(s)	925, 938, 945
HgaI	GACGC	1 cut(s)	328
HhaI	GCGC	1 cut(s)	905
Hin1II	CATG	7 cut(s)	148, 361, 461, 482, 852, 919, 930
Hin6I	GCGC	1 cut(s)	903
HinP1I	GCGC	1 cut(s)	903
HinfI	GANTC	8 cut(s)	65, 184, 283, 310, 325, 395, 602, 972
HphI	GGTGA	1 cut(s)	578
Hpy166II	GTNNAC	3 cut(s)	268, 465, 744
Hpy188I	TCNGA	5 cut(s)	40, 211, 282, 309, 724
Hpy188III	TCNNGA	5 cut(s)	104, 287, 392, 578, 791
Hpy8I	GTNNAC	3 cut(s)	268, 465, 744
HpyAV	CCTTC	7 cut(s)	142, 563, 629, 654, 782, 788, 869
HpyCH4III	ACNGT	2 cut(s)	538, 544
HpyCH4IV	ACGT	1 cut(s)	425
HpyCH4V	TGCA	5 cut(s)	71, 434, 699, 712, 968
HpyF10VI	GCNNNNNNNGC	3 cut(s)	497, 712, 951
HpyF3I	CTNAG	2 cut(s)	308, 450
HpySE526I	ACGT	1 cut(s)	425
Hsp92II	CATG	7 cut(s)	148, 361, 461, 482, 852, 919, 930
HspAI	GCGC	1 cut(s)	903
Ksp22I	TGATCA	1 cut(s)	354
Kzo9I	GATC	3 cut(s)	354, 734, 839
LmnI	GCTCC	3 cut(s)	283, 451, 689
Lsp1109I	GCAGC	3 cut(s)	261, 478, 724
LweI	GCATC	1 cut(s)	728
MaeI	CTAG	3 cut(s)	501, 635, 921
MaeII	ACGT	1 cut(s)	425
MaeIII	GTNAC	3 cut(s)	311, 426, 538
MalI	GATC	3 cut(s)	356, 736, 841
MboI	GATC	3 cut(s)	354, 734, 839
MboII	GAAGA	2 cut(s)	88, 601
MflI	RGATCY	1 cut(s)	839
MluCI	AATT	3 cut(s)	9, 21, 227
MlyI	GAGTC	4 cut(s)	277, 319, 404, 966
MmeI	TCCRAC	2 cut(s)	305, 817
MnlI	CCTC	8 cut(s)	42, 160, 499, 505, 588, 814, 849, 928
MroXI	GAANNNNTTC	1 cut(s)	573
MseI	TTAA	4 cut(s)	156, 201, 419, 662
MspR9I	CCNGG	4 cut(s)	378, 614, 631, 815
Mva1269I	GAATGC	1 cut(s)	205
MvaI	CCWGG	4 cut(s)	378, 614, 631, 815
MwoI	GCNNNNNNNGC	3 cut(s)	497, 712, 951
NdeI	CATATG	1 cut(s)	781
NdeII	GATC	3 cut(s)	354, 734, 839
NheI	GCTAGC	1 cut(s)	634
NlaIII	CATG	7 cut(s)	148, 361, 461, 482, 852, 919, 930
NlaIV	GGNNCC	4 cut(s)	235, 279, 415, 447
NmeAIII	GCCGAG	1 cut(s)	476
NmuCI	GTSAC	3 cut(s)	311, 426, 538
NspI	RCATGY	1 cut(s)	461
PaqCI	CACCTGC	1 cut(s)	697
PciI	ACATGT	1 cut(s)	457
PctI	GAATGC	1 cut(s)	205
PdmI	GAANNNNTTC	1 cut(s)	573
PfeI	GAWTC	4 cut(s)	65, 184, 325, 602
PfoI	TCCNGGA	1 cut(s)	612
PkrI	GCNGC	4 cut(s)	251, 493, 714, 861
PleI	GAGTC	4 cut(s)	277, 318, 403, 966
PpsI	GAGTC	4 cut(s)	277, 318, 403, 966
PpuMI	RGGWCCY	1 cut(s)	414
PscI	ACATGT	1 cut(s)	457
Psp5II	RGGWCCY	1 cut(s)	414
Psp6I	CCWGG	4 cut(s)	376, 612, 629, 813
PspGI	CCWGG	4 cut(s)	376, 612, 629, 813
PspN4I	GGNNCC	4 cut(s)	235, 279, 415, 447
PspPI	GGNCC	3 cut(s)	234, 414, 616
PspPPI	RGGWCCY	1 cut(s)	414
PstNI	CAGNNNCTG	1 cut(s)	605
PsuI	RGATCY	1 cut(s)	839
SaqAI	TTAA	4 cut(s)	156, 201, 419, 662
SatI	GCNGC	4 cut(s)	250, 492, 713, 860
Sau3AI	GATC	3 cut(s)	354, 734, 839
Sau96I	GGNCC	3 cut(s)	234, 414, 616
SchI	GAGTC	4 cut(s)	277, 319, 404, 966
ScrFI	CCNGG	4 cut(s)	378, 614, 631, 815
SfaNI	GCATC	1 cut(s)	728
SinI	GGWCC	3 cut(s)	234, 414, 616
SmlI	CTYRAG	1 cut(s)	179
SmoI	CTYRAG	1 cut(s)	179
Sse9I	AATT	3 cut(s)	9, 21, 227
SsiI	CCGC	1 cut(s)	859
SspMI	CTAG	3 cut(s)	501, 635, 921
StyD4I	CCNGG	4 cut(s)	376, 612, 629, 813
StyI	CCWWGG	1 cut(s)	237
TaaI	ACNGT	2 cut(s)	538, 544
TaiI	ACGT	1 cut(s)	428
TaqI	TCGA	2 cut(s)	790, 819
TasI	AATT	3 cut(s)	9, 21, 227
TauI	GCSGC	1 cut(s)	862
TfiI	GAWTC	4 cut(s)	65, 184, 325, 602
Tru1I	TTAA	4 cut(s)	156, 201, 419, 662
Tru9I	TTAA	4 cut(s)	156, 201, 419, 662
TscAI	CASTG	1 cut(s)	955
TseFI	GTSAC	3 cut(s)	311, 426, 538
TseI	GCWGC	3 cut(s)	249, 491, 712
Tsp45I	GTSAC	3 cut(s)	311, 426, 538
TspDTI	ATGAA	2 cut(s)	161, 798
TspGWI	ACGGA	1 cut(s)	898
TspRI	CASTG	1 cut(s)	955
VpaK11BI	GGWCC	3 cut(s)	234, 414, 616
XagI	CCTNNNNNAGG	1 cut(s)	499
XapI	RAATTY	2 cut(s)	9, 21
XceI	RCATGY	1 cut(s)	461
XmiI	GTMKAC	1 cut(s)	464
XmnI	GAANNNNTTC	1 cut(s)	573
XspI	CTAG	3 cut(s)	501, 635, 921

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