Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4C

Orthogroup ID

OG0000816

Physical Location & Seq

Genomic Coordinates Reverse (-)

62816293 .. 62820020

Gene Structure 3728 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4CG374200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 927 bp

ATGGGTTTGACTCAATACTTGAGCTCAATCGATTGGGAGCAAGAAGCCTACCCAGAATACCAAGACTTTATATTTCTTCCTTTCTTTATTTTGTTCTTCCCCACAGTTCGACTTTTTCTTGACAAGTTCGTCCTTGAGAAACTGGGGAGACGGTTAATATTTGGAAAGGGGTATCGGCTGCTGGATGTTAAAACTGATGATCAAAAGAGGAAGATTCGAAAATTCAAGGAATCAGCATGGAAGTGCATCTACTTTCTTTCAGCAGAGTGTCTGGCTCTTTCTGCAACTTATAATGAGCCTTGGTTTACAAATACAAAGTACTTTTGGGTAGGGCCAGGAGATCAGGTTTGGCCTGACCAGAAGACAAAGTTGAAGTTGAAGGGGGTATATATGTATTGTGCTGGATTTTACACATACTCCATATTTGCTTTGATTTTCTGGGAAACAAGGCGTTCCGACTTTGGAGTTTCAATGGGGCATCATGTAGCAACTGTCATTCTCATTCTGCTGTCTTACATTTTCAGGTTTGCCCGTGTAGGTTCAGTTGTTTTAGCTCTTCATGATGCCAGTGACGTGTTTCTGGAAGTAGGGAAGATGTCCAAATACAGTGGTGCTGAAAGGACTGCTAGCTTTTCATTTATTCTTTTTGTATTGTCTTGGGTCATACTGCGTCTCATTTACTATCCATTCTGGGTCCTTTGGAGCACAAGCTATGAAGTTATCCTGACATTGGACAAGGAAAAGCACGCTGTAGATGGACCAATATATTACTATGTATTCAATACTCTTCTGTACTGCTTGCTTGTTCTTCACATATTCTGGTGGGTGTTGATGTACCGGATGCTTGTTAAACAAATTCAAGCAAGAGGCCAGCTTAGTGATGATGTTCGATCAGATTCTGAAGCTGAAGATGACCACGAAGATTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000038 GO:0003674 GO:0003824 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005783 GO:0005794 GO:0005886 GO:0006082 GO:0006629 GO:0006631 GO:0006633 GO:0006643 GO:0006665 GO:0006672 GO:0006807 GO:0008150 GO:0008152 GO:0008610 GO:0009058 GO:0009987 GO:0012505 GO:0016020 GO:0016053 GO:0016410 GO:0016740 GO:0016746 GO:0016747 GO:0019752 GO:0030148 GO:0032787 GO:0034641 GO:0042761 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043436 GO:0043603 GO:0043604 GO:0044237 GO:0044238 GO:0044249 GO:0044255 GO:0044271 GO:0044281 GO:0044283 GO:0044424 GO:0044444 GO:0044464 GO:0046394 GO:0046467 GO:0046513 GO:0050291 GO:0071704 GO:0071944 GO:0072330 GO:1901564 GO:1901566 GO:1901576

KEGG Pathways

Metabolic & Signaling

ko00600 ko01100 ko04071 map00600 map01100 map04071

Pfam Domains

Protein Families

TRAM_LAG1_CLN8

Protein Analysis

308

Amino Acids

36.47

Weight (kDa)

7.01

Isoelectric Point (pI)

33.75

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TRAM_LAG1_CLN8	PF03798	74 - 280	2.8e-48	TLC 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: OG0000816)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G13580 AT1G13580 AT1G13580 AT3G25540 AT3G25540 AT3G25540
fragaria_vesca	FvH4_4g28710 FvH4_4g28710 FvH4_4g28710 FvH4_4g28710 FvH4_4g28710 FvH4_4g28710 FvH4_5g13070 FvH4_5g13070 FvH4_5g13070 FvH4_5g13070 FvH4_5g13070 FvH4_5g13070 FvH4_5g13070 FvH4_5g13070 FvH4_5g13070 FvH4_5g13070 FvH4_5g13070 FvH4_5g13070 FvH4_5g13070
malus_domestica	MD06G1207300.v1.1 MD13G1053200.v1.1 MD14G1217800.v1.1 MD16G1052200.v1.1
prunus_persica	Prupe.1G298900_v2.0.a1 Prupe.5G211700_v2.0.a1
pyrus_communis	pycom06g18520 pycom13g04760 pycom14g18060 pycom16g04580
rosa_chinensis	RchiOBHm_Chr4g0436831 RchiOBHm_Chr7g0184061
rosa_laevigata	RLG00000005004 RLG00000006493
rosa_multiflora	Rmu_sc0001837.1_g000015 Rmu_sc0004712.1_g000010 Rmu_sc0025350.1_g000014
rosa_roxburghii	Rroxscaffold_2G00110680 Rroxscaffold_3G00269920 Rroxscaffold_5G00377880
rosa_rugosa	Rorug04G0296500 Rorug04G0296500 Rorug06G0461800 Rorug06G0461900 Rorug06G0462000 Rorug06G0462100 Rorug06G0462200 Rorug06G0462300 Rorug06G0462400 Rorug06G0462400
rosa_samantha	Rh2AG465300 Rh2CG361300 Rh2CG451700 Rh4BG359900 Rh4CG374200 Rh4DG353900 Rh6CG248500 Rh6DG208700 Rh7BG063800 Rh7CG064500 Rh7DG064000
rosa_wichuraiana	Rw4G030710 Rw7G005240

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	291
AasI	GACNNNNNNGTC	1 cut(s)	128
AcsI	RAATTY	2 cut(s)	221, 855
AcuI	CTGAAG	2 cut(s)	921, 927
AfaI	GTAC	3 cut(s)	320, 794, 836
AfiI	CCNNNNNNNGG	1 cut(s)	730
AflIII	ACRYGT	1 cut(s)	573
AgsI	TTSAA	6 cut(s)	226, 373, 379, 471, 781, 860
AjiI	CACGTC	1 cut(s)	574
AjnI	CCWGG	1 cut(s)	334
AluBI	AGCT	6 cut(s)	24, 554, 630, 711, 874, 905
AluI	AGCT	6 cut(s)	24, 554, 630, 711, 874, 905
Alw21I	GWGCWC	2 cut(s)	26, 707
Alw26I	GTCTC	2 cut(s)	142, 677
AlwNI	CAGNNNCTG	1 cut(s)	899
AoxI	GGCC	3 cut(s)	332, 350, 868
ApeKI	GCWGC	1 cut(s)	178
ApoI	RAATTY	2 cut(s)	221, 855
AspS9I	GGNCC	3 cut(s)	332, 694, 758
AsuII	TTCGAA	1 cut(s)	217
AsuNHI	GCTAGC	1 cut(s)	626
AvaII	GGWCC	2 cut(s)	694, 758
BanII	GRGCYC	1 cut(s)	26
BarI	GAAGNNNNNNTAC	2 cut(s)	233, 265
BbsI	GAAGAC	1 cut(s)	368
Bbv12I	GWGCWC	2 cut(s)	26, 707
BbvI	GCAGC	1 cut(s)	165
BccI	CCATC	1 cut(s)	749
BciT130I	CCWGG	1 cut(s)	336
BclI	TGATCA	1 cut(s)	199
BcoDI	GTCTC	2 cut(s)	142, 677
BfaI	CTAG	1 cut(s)	627
BfmI	CTRYAG	1 cut(s)	750
BisI	GCNGC	1 cut(s)	179
BlsI	GCNGC	1 cut(s)	180
BmcAI	AGTACT	1 cut(s)	320
Bme1390I	CCNGG	1 cut(s)	336
Bme18I	GGWCC	2 cut(s)	694, 758
BmgBI	CACGTC	1 cut(s)	574
BmgT120I	GGNCC	3 cut(s)	332, 694, 758
BmiI	GGNNCC	1 cut(s)	695
BmrFI	CCNGG	1 cut(s)	336
BmrI	ACTGGG	1 cut(s)	152
BmsI	GCATC	4 cut(s)	255, 487, 553, 831
BmtI	GCTAGC	1 cut(s)	630
BmuI	ACTGGG	1 cut(s)	152
BpiI	GAAGAC	1 cut(s)	368
Bpu14I	TTCGAA	1 cut(s)	217
BpuEI	CTTGAG	2 cut(s)	40, 155
Bsa29I	ATCGAT	1 cut(s)	30
BsaJI	CCNNGG	1 cut(s)	299
BsaWI	WCCGGW	1 cut(s)	837
BsaXI	ACNNNNNCTCC	4 cut(s)	330, 360, 401, 431
Bsc4I	CCNNNNNNNGG	1 cut(s)	730
Bse1I	ACTGG	2 cut(s)	147, 567
BseBI	CCWGG	1 cut(s)	336
BseCI	ATCGAT	1 cut(s)	30
BseDI	CCNNGG	1 cut(s)	299
BseGI	GGATG	2 cut(s)	190, 846
BseLI	CCNNNNNNNGG	1 cut(s)	730
BseNI	ACTGG	2 cut(s)	147, 567
BseXI	GCAGC	1 cut(s)	165
BshFI	GGCC	3 cut(s)	334, 352, 870
BshVI	ATCGAT	1 cut(s)	30
BsiHKAI	GWGCWC	2 cut(s)	26, 707
BsiSI	CCGG	1 cut(s)	838
BslI	CCNNNNNNNGG	1 cut(s)	730
BsmAI	GTCTC	2 cut(s)	142, 677
BsmBI	CGTCTC	2 cut(s)	142, 677
BsnI	GGCC	3 cut(s)	334, 352, 870
Bsp119I	TTCGAA	1 cut(s)	217
Bsp1286I	GDGCHC	2 cut(s)	26, 707
Bsp143I	GATC	3 cut(s)	199, 340, 890
BspANI	GGCC	3 cut(s)	334, 352, 870
BspDI	ATCGAT	1 cut(s)	30
BspHI	TCATGA	1 cut(s)	559
BspLI	GGNNCC	1 cut(s)	695
BspOI	GCTAGC	1 cut(s)	630
BspQI	GCTCTTC	1 cut(s)	561
BspT104I	TTCGAA	1 cut(s)	217
BsrI	ACTGG	2 cut(s)	147, 567
BssECI	CCNNGG	1 cut(s)	299
BssMI	GATC	3 cut(s)	199, 340, 890
BssT1I	CCWWGG	1 cut(s)	299
Bst2UI	CCWGG	1 cut(s)	336
Bst4CI	ACNGT	4 cut(s)	106, 153, 493, 608
Bst6I	CTCTTC	2 cut(s)	561, 792
BstBI	TTCGAA	1 cut(s)	217
BstC8I	GCNNGC	4 cut(s)	628, 747, 800, 872
BstDEI	CTNAG	1 cut(s)	875
BstF5I	GGATG	2 cut(s)	190, 846
BstKTI	GATC	3 cut(s)	202, 343, 893
BstMAI	GTCTC	2 cut(s)	142, 677
BstMBI	GATC	3 cut(s)	199, 340, 890
BstMWI	GCNNNNNNNGC	1 cut(s)	281
BstNI	CCWGG	1 cut(s)	336
BstSCI	CCNGG	1 cut(s)	334
BstSFI	CTRYAG	1 cut(s)	750
BstV1I	GCAGC	1 cut(s)	165
BstV2I	GAAGAC	1 cut(s)	368
Bsu15I	ATCGAT	1 cut(s)	30
BsuRI	GGCC	3 cut(s)	334, 352, 870
BsuTUI	ATCGAT	1 cut(s)	30
BtrI	CACGTC	1 cut(s)	574
BtsCI	GGATG	2 cut(s)	190, 846
BtsIMutI	CAGTG	2 cut(s)	574, 613
Cac8I	GCNNGC	4 cut(s)	628, 747, 800, 872
CaiI	CAGNNNCTG	1 cut(s)	899
CciI	TCATGA	1 cut(s)	559
Cfr13I	GGNCC	3 cut(s)	332, 694, 758
ClaI	ATCGAT	1 cut(s)	30
CseI	GACGC	1 cut(s)	659
Csp6I	GTAC	3 cut(s)	319, 793, 835
CspCI	CAANNNNNGTGG	3 cut(s)	589, 624, 905
CviAII	CATG	3 cut(s)	237, 482, 560
CviQI	GTAC	3 cut(s)	319, 793, 835
DdeI	CTNAG	1 cut(s)	875
DpnI	GATC	3 cut(s)	201, 342, 892
DpnII	GATC	3 cut(s)	199, 340, 890
DrdI	GACNNNNNNGTC	1 cut(s)	128
DseDI	GACNNNNNNGTC	1 cut(s)	128
Eam1104I	CTCTTC	2 cut(s)	561, 792
EarI	CTCTTC	2 cut(s)	561, 792
Ecl136II	GAGCTC	1 cut(s)	24
Eco130I	CCWWGG	1 cut(s)	299
Eco24I	GRGCYC	1 cut(s)	26
Eco47I	GGWCC	2 cut(s)	694, 758
Eco53kI	GAGCTC	1 cut(s)	24
Eco57I	CTGAAG	2 cut(s)	921, 927
EcoICRI	GAGCTC	1 cut(s)	24
EcoO109I	RGGNCCY	1 cut(s)	694
EcoRII	CCWGG	1 cut(s)	334
EcoT14I	CCWWGG	1 cut(s)	299
EcoT38I	GRGCYC	1 cut(s)	26
ErhI	CCWWGG	1 cut(s)	299
Esp3I	CGTCTC	2 cut(s)	142, 677
FaeI	CATG	3 cut(s)	240, 485, 563
FatI	CATG	3 cut(s)	236, 481, 559
FbaI	TGATCA	1 cut(s)	199
Fnu4HI	GCNGC	1 cut(s)	179
FokI	GGATG	2 cut(s)	197, 853
FriOI	GRGCYC	1 cut(s)	26
Fsp4HI	GCNGC	1 cut(s)	179
FspBI	CTAG	1 cut(s)	627
GluI	GCNGC	1 cut(s)	179
HaeIII	GGCC	3 cut(s)	334, 352, 870
HapII	CCGG	1 cut(s)	838
HgaI	GACGC	1 cut(s)	659
Hin1II	CATG	3 cut(s)	240, 485, 563
HinfI	GANTC	4 cut(s)	10, 214, 230, 896
HpaII	CCGG	1 cut(s)	838
Hpy166II	GTNNAC	1 cut(s)	306
Hpy188I	TCNGA	3 cut(s)	457, 895, 901
Hpy188III	TCNNGA	4 cut(s)	119, 560, 581, 724
Hpy8I	GTNNAC	1 cut(s)	306
HpyAV	CCTTC	1 cut(s)	373
HpyCH4III	ACNGT	4 cut(s)	106, 153, 493, 608
HpyCH4IV	ACGT	1 cut(s)	573
HpyCH4V	TGCA	2 cut(s)	246, 284
HpyF10VI	GCNNNNNNNGC	1 cut(s)	281
HpyF3I	CTNAG	1 cut(s)	875
HpySE526I	ACGT	1 cut(s)	573
Hsp92II	CATG	3 cut(s)	240, 485, 563
Ksp22I	TGATCA	1 cut(s)	199
Kzo9I	GATC	3 cut(s)	199, 340, 890
LguI	GCTCTTC	1 cut(s)	561
LmnI	GCTCC	2 cut(s)	37, 702
Lsp1109I	GCAGC	1 cut(s)	165
LweI	GCATC	4 cut(s)	255, 487, 553, 831
MaeI	CTAG	1 cut(s)	627
MaeII	ACGT	1 cut(s)	573
MaeIII	GTNAC	1 cut(s)	569
MalI	GATC	3 cut(s)	201, 342, 892
MboI	GATC	3 cut(s)	199, 340, 890
MboII	GAAGA	9 cut(s)	68, 88, 223, 373, 548, 604, 779, 800, 920
MhlI	GDGCHC	2 cut(s)	26, 707
MluCI	AATT	2 cut(s)	221, 855
MlyI	GAGTC	1 cut(s)	4
MmeI	TCCRAC	1 cut(s)	480
MnlI	CCTC	2 cut(s)	201, 860
MseI	TTAA	3 cut(s)	155, 189, 849
MslI	CAYNNNNRTG	1 cut(s)	241
MspI	CCGG	1 cut(s)	838
MspR9I	CCNGG	1 cut(s)	336
MvaI	CCWGG	1 cut(s)	336
MwoI	GCNNNNNNNGC	1 cut(s)	281
NdeII	GATC	3 cut(s)	199, 340, 890
NheI	GCTAGC	1 cut(s)	626
NlaIII	CATG	3 cut(s)	240, 485, 563
NlaIV	GGNNCC	1 cut(s)	695
NmuCI	GTSAC	1 cut(s)	569
NspV	TTCGAA	1 cut(s)	217
PagI	TCATGA	1 cut(s)	559
PciSI	GCTCTTC	1 cut(s)	561
PfeI	GAWTC	3 cut(s)	214, 230, 896
PkrI	GCNGC	1 cut(s)	180
PleI	GAGTC	1 cut(s)	4
PpsI	GAGTC	1 cut(s)	4
PpuMI	RGGWCCY	1 cut(s)	694
PsiI	TTATAA	1 cut(s)	291
Psp124BI	GAGCTC	1 cut(s)	26
Psp5II	RGGWCCY	1 cut(s)	694
Psp6I	CCWGG	1 cut(s)	334
PspGI	CCWGG	1 cut(s)	334
PspN4I	GGNNCC	1 cut(s)	695
PspPI	GGNCC	3 cut(s)	332, 694, 758
PspPPI	RGGWCCY	1 cut(s)	694
PstNI	CAGNNNCTG	1 cut(s)	899
RsaI	GTAC	3 cut(s)	320, 794, 836
RsaNI	GTAC	3 cut(s)	319, 793, 835
RseI	CAYNNNNRTG	1 cut(s)	241
SacI	GAGCTC	1 cut(s)	26
SapI	GCTCTTC	1 cut(s)	561
SaqAI	TTAA	3 cut(s)	155, 189, 849
SatI	GCNGC	1 cut(s)	179
Sau3AI	GATC	3 cut(s)	199, 340, 890
Sau96I	GGNCC	3 cut(s)	332, 694, 758
ScaI	AGTACT	1 cut(s)	320
SchI	GAGTC	1 cut(s)	4
ScrFI	CCNGG	1 cut(s)	336
SduI	GDGCHC	2 cut(s)	26, 707
SfaNI	GCATC	4 cut(s)	255, 487, 553, 831
SfcI	CTRYAG	1 cut(s)	750
SfuI	TTCGAA	1 cut(s)	217
SinI	GGWCC	2 cut(s)	694, 758
SmiMI	CAYNNNNRTG	1 cut(s)	241
SmlI	CTYRAG	2 cut(s)	19, 134
SmoI	CTYRAG	2 cut(s)	19, 134
Sse9I	AATT	2 cut(s)	221, 855
SspI	AATATT	1 cut(s)	159
SspMI	CTAG	1 cut(s)	627
SstI	GAGCTC	1 cut(s)	26
StyD4I	CCNGG	1 cut(s)	334
StyI	CCWWGG	1 cut(s)	299
TaaI	ACNGT	4 cut(s)	106, 153, 493, 608
TaiI	ACGT	1 cut(s)	576
TaqI	TCGA	4 cut(s)	30, 109, 217, 889
TasI	AATT	2 cut(s)	221, 855
TatI	WGTACW	2 cut(s)	318, 792
TfiI	GAWTC	3 cut(s)	214, 230, 896
Tru1I	TTAA	3 cut(s)	155, 189, 849
Tru9I	TTAA	3 cut(s)	155, 189, 849
TscAI	CASTG	2 cut(s)	574, 613
TseFI	GTSAC	1 cut(s)	569
TseI	GCWGC	1 cut(s)	178
Tsp45I	GTSAC	1 cut(s)	569
TspDTI	ATGAA	3 cut(s)	548, 624, 729
TspRI	CASTG	2 cut(s)	574, 613
VpaK11BI	GGWCC	2 cut(s)	694, 758
XapI	RAATTY	2 cut(s)	221, 855
XspI	CTAG	1 cut(s)	627
ZrmI	AGTACT	1 cut(s)	320

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