Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2A

Orthogroup ID

OG0001172

Physical Location & Seq

Genomic Coordinates Reverse (-)

71565762 .. 71567829

Gene Structure 2068 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2AG494200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 777 bp

ATGGCAATCAAATCCTATGAGATGGTGGCTGAGCAATACCTGCTCTCTGACCCTTTTGTTCCTTACACATCTATGCTTTTGGGGATTTGCGCCTGCAAATTGGTTTACCATGTTAACCATTTGCTCAGTGCTGCTTACTTCAAGGGATATTCTGGCCTTTCGAGGATGAAACGTATTGAGTGGAACAATAGGGCTATGTCAACTCTTCATGCCATTTTTATCACAGCTATGTCATTGTACTTGGTGTTTTGGTCGAATCTCTATTCCGACTATTCTGACAACCAACTCAAGCCATTTGTTACTTTGCAGAGCTCCCCATTGTCTACATTTGTATTGGGGGTTTCAGTTGGGTACTTCCTATCTGACCTTGGCATGATCTTTTGGTTTTACCCTGCTCTAGGTGGATTGGAATATGTGATTCATCATCTTCTTTCTATAGCATCTGTAGCATATGCAATGTTGACTGGGGAAGGACAACTGTATACCTACATGGTTCTTATCTCTGAGACAACCACCCCCGGTAAAACAAATGCACGCCGTTGGACAATTTTTAGCTTTCGGGGTGCCACCGATACTAGCTGTCATGAATTTGATGTGGTTTGGGAAGATTTTGAAGGGATTGAAGAAGACATTAGCAAAGAGGCAATGAGATTTGATGGGGGTGATATTCACTTAAGAAGTGTGACCGAAGTTAAATCTAATTGTATATCCAGTTGCATACAATCTTTATTCATCTATCCCCTTCTGAACCTCGCTTGTCTCCATCATGGCATGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

TRAM_LAG1_CLN8

Protein Analysis

258

Amino Acids

29.22

Weight (kDa)

5.67

Isoelectric Point (pI)

47.62

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TRAM_LAG1_CLN8	PF03798	60 - 173	6.8e-17	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: OG0001172)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G31300 AT1G31300 AT1G31300 AT4G19645 AT4G19645 AT4G19645 AT4G19645 AT4G19645
fragaria_vesca	FvH4_3g11930 FvH4_3g11930 FvH4_3g11930 FvH4_3g11930 FvH4_6g38810 FvH4_6g38810 FvH4_6g38810 FvH4_6g38810
malus_domestica	MD05G1256500.v1.1 MD09G1146700.v1.1 MD10G1237000.v1.1
prunus_persica	Prupe.3G178700_v2.0.a1 Prupe.3G178700_v2.0.a1 Prupe.3G178700_v2.0.a1 Prupe.3G178700_v2.0.a1 Prupe.4G107300_v2.0.a1 Prupe.4G107300_v2.0.a1 Prupe.4G107300_v2.0.a1 Prupe.4G107300_v2.0.a1 Prupe.4G107300_v2.0.a1 Prupe.4G107300_v2.0.a1
pyrus_communis	pycom05g23580 pycom09g06700 pycom10g19820
rosa_chinensis	RchiOBHm_Chr2g0152411 RchiOBHm_Chr5g0019511
rosa_laevigata	RLG00000020631 RLG00000032451
rosa_multiflora	Rmu_sc0002759.1_g000048 Rmu_sc0005885.1_g000004
rosa_roxburghii	Rroxscaffold_1G00058550 Rroxscaffold_2G00095750
rosa_rugosa	Rorug02G0432800 Rorug02G0432800 Rorug02G0432800 Rorug05G0051200.1 Rorug05G0051300 Rorug05G0051400 Rorug05G0051500
rosa_samantha	Rh2AG494200 Rh2BG506500 Rh2CG480500 Rh2DG517600 Rh5AG142200 Rh5BG140600 Rh5CG152700 Rh5DG141300
rosa_wichuraiana	Rw2G040660 Rw5G012580

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	48
AccB1I	GGYRCC	1 cut(s)	563
AccI	GTMKAC	2 cut(s)	323, 482
AcsI	RAATTY	1 cut(s)	587
AfaI	GTAC	2 cut(s)	239, 353
AfiI	CCNNNNNNNGG	1 cut(s)	398
AflII	CTTAAG	1 cut(s)	673
AgsI	TTSAA	3 cut(s)	142, 614, 623
AluBI	AGCT	4 cut(s)	227, 312, 555, 579
AluI	AGCT	4 cut(s)	227, 312, 555, 579
Alw21I	GWGCWC	1 cut(s)	314
Alw26I	GTCTC	2 cut(s)	500, 764
AoxI	GGCC	1 cut(s)	154
ApeKI	GCWGC	1 cut(s)	131
ApoI	RAATTY	1 cut(s)	587
AspLEI	GCGC	1 cut(s)	92
AsuC2I	CCSGG	1 cut(s)	519
AsuHPI	GGTGA	1 cut(s)	674
BanI	GGYRCC	1 cut(s)	563
BanII	GRGCYC	1 cut(s)	314
BbsI	GAAGAC	1 cut(s)	633
Bbv12I	GWGCWC	1 cut(s)	314
BbvI	GCAGC	1 cut(s)	118
BccI	CCATC	3 cut(s)	16, 650, 771
BceAI	ACGGC	1 cut(s)	522
BcnI	CCSGG	1 cut(s)	519
BcoDI	GTCTC	2 cut(s)	500, 764
BfaI	CTAG	2 cut(s)	398, 576
BfmI	CTRYAG	2 cut(s)	435, 444
BfrI	CTTAAG	1 cut(s)	673
BfuAI	ACCTGC	1 cut(s)	48
BisI	GCNGC	1 cut(s)	132
BlpI	GCTNAGC	1 cut(s)	30
BlsI	GCNGC	1 cut(s)	133
Bme1390I	CCNGG	1 cut(s)	519
BmiI	GGNNCC	1 cut(s)	565
BmrFI	CCNGG	1 cut(s)	519
BmrI	ACTGGG	1 cut(s)	474
BmsI	GCATC	1 cut(s)	449
BmuI	ACTGGG	1 cut(s)	474
BpiI	GAAGAC	1 cut(s)	633
Bpu1102I	GCTNAGC	1 cut(s)	30
BpuEI	CTTGAG	1 cut(s)	272
BpuMI	CCSGG	1 cut(s)	519
BsaJI	CCNNGG	2 cut(s)	367, 517
Bsc4I	CCNNNNNNNGG	1 cut(s)	398
Bse1I	ACTGG	2 cut(s)	469, 711
Bse3DI	GCAATG	2 cut(s)	462, 651
BseDI	CCNNGG	2 cut(s)	367, 517
BseGI	GGATG	1 cut(s)	171
BseLI	CCNNNNNNNGG	1 cut(s)	398
BseMI	GCAATG	2 cut(s)	462, 651
BseMII	CTCAG	3 cut(s)	21, 139, 495
BseNI	ACTGG	2 cut(s)	469, 711
BseXI	GCAGC	1 cut(s)	118
BshFI	GGCC	1 cut(s)	156
BshNI	GGYRCC	1 cut(s)	563
BsiHKAI	GWGCWC	1 cut(s)	314
BsiSI	CCGG	1 cut(s)	519
BslI	CCNNNNNNNGG	1 cut(s)	398
BsmAI	GTCTC	2 cut(s)	500, 764
BsnI	GGCC	1 cut(s)	156
Bsp1286I	GDGCHC	1 cut(s)	314
Bsp143I	GATC	1 cut(s)	375
Bsp1720I	GCTNAGC	1 cut(s)	30
BspANI	GGCC	1 cut(s)	156
BspCNI	CTCAG	3 cut(s)	22, 138, 496
BspHI	TCATGA	1 cut(s)	583
BspLI	GGNNCC	1 cut(s)	565
BspMI	ACCTGC	1 cut(s)	48
BspT107I	GGYRCC	1 cut(s)	563
BspTI	CTTAAG	1 cut(s)	673
BsrDI	GCAATG	2 cut(s)	462, 651
BsrI	ACTGG	2 cut(s)	469, 711
BssECI	CCNNGG	2 cut(s)	367, 517
BssMI	GATC	1 cut(s)	375
BssNAI	GTATAC	1 cut(s)	483
BssT1I	CCWWGG	1 cut(s)	367
Bst1107I	GTATAC	1 cut(s)	483
Bst4CI	ACNGT	1 cut(s)	480
Bst6I	CTCTTC	1 cut(s)	210
BstAFI	CTTAAG	1 cut(s)	673
BstAPI	GCANNNNNTGC	1 cut(s)	40
BstC8I	GCNNGC	2 cut(s)	94, 535
BstDEI	CTNAG	3 cut(s)	30, 125, 504
BstENI	CCTNNNNNAGG	1 cut(s)	396
BstF5I	GGATG	1 cut(s)	171
BstHHI	GCGC	1 cut(s)	92
BstKTI	GATC	1 cut(s)	378
BstMAI	GTCTC	2 cut(s)	500, 764
BstMBI	GATC	1 cut(s)	375
BstMWI	GCNNNNNNNGC	2 cut(s)	40, 446
BstNSI	RCATGY	1 cut(s)	775
BstSCI	CCNGG	1 cut(s)	517
BstSFI	CTRYAG	2 cut(s)	435, 444
BstV1I	GCAGC	1 cut(s)	118
BstV2I	GAAGAC	1 cut(s)	633
BstZ17I	GTATAC	1 cut(s)	483
BsuRI	GGCC	1 cut(s)	156
BtsCI	GGATG	1 cut(s)	171
BtsIMutI	CAGTG	1 cut(s)	133
BveI	ACCTGC	1 cut(s)	48
Cac8I	GCNNGC	2 cut(s)	94, 535
CciI	TCATGA	1 cut(s)	583
CfoI	GCGC	1 cut(s)	92
Csp6I	GTAC	2 cut(s)	238, 352
CviAII	CATG	7 cut(s)	110, 209, 373, 490, 584, 767, 772
CviJI	RGCY	8 cut(s)	29, 156, 194, 227, 292, 312, 555, 579
CviKI_1	RGCY	8 cut(s)	29, 156, 194, 227, 292, 312, 555, 579
CviQI	GTAC	2 cut(s)	238, 352
DdeI	CTNAG	3 cut(s)	30, 125, 504
DpnI	GATC	1 cut(s)	377
DpnII	GATC	1 cut(s)	375
Eam1104I	CTCTTC	1 cut(s)	210
EarI	CTCTTC	1 cut(s)	210
Ecl136II	GAGCTC	1 cut(s)	312
Eco130I	CCWWGG	1 cut(s)	367
Eco24I	GRGCYC	1 cut(s)	314
Eco53kI	GAGCTC	1 cut(s)	312
EcoICRI	GAGCTC	1 cut(s)	312
EcoNI	CCTNNNNNAGG	1 cut(s)	396
EcoT14I	CCWWGG	1 cut(s)	367
EcoT38I	GRGCYC	1 cut(s)	314
ErhI	CCWWGG	1 cut(s)	367
FaeI	CATG	7 cut(s)	113, 212, 376, 493, 587, 770, 775
FatI	CATG	7 cut(s)	109, 208, 372, 489, 583, 766, 771
FauNDI	CATATG	1 cut(s)	451
FblI	GTMKAC	2 cut(s)	323, 482
Fnu4HI	GCNGC	1 cut(s)	132
FokI	GGATG	1 cut(s)	178
FriOI	GRGCYC	1 cut(s)	314
Fsp4HI	GCNGC	1 cut(s)	132
FspBI	CTAG	2 cut(s)	398, 576
GlaI	GCGC	1 cut(s)	91
GluI	GCNGC	1 cut(s)	132
HaeIII	GGCC	1 cut(s)	156
HapII	CCGG	1 cut(s)	519
HhaI	GCGC	1 cut(s)	92
Hin1II	CATG	7 cut(s)	113, 212, 376, 493, 587, 770, 775
Hin6I	GCGC	1 cut(s)	90
HinP1I	GCGC	1 cut(s)	90
HincII	GTYRAC	3 cut(s)	115, 201, 462
HindII	GTYRAC	3 cut(s)	115, 201, 462
HinfI	GANTC	2 cut(s)	256, 418
HpaI	GTTAAC	1 cut(s)	115
HpaII	CCGG	1 cut(s)	519
HphI	GGTGA	1 cut(s)	674
Hpy166II	GTNNAC	6 cut(s)	106, 115, 201, 324, 462, 483
Hpy188I	TCNGA	6 cut(s)	49, 268, 277, 364, 505, 747
Hpy188III	TCNNGA	1 cut(s)	584
Hpy8I	GTNNAC	6 cut(s)	106, 115, 201, 324, 462, 483
HpyAV	CCTTC	3 cut(s)	464, 608, 752
HpyCH4III	ACNGT	1 cut(s)	480
HpyCH4IV	ACGT	1 cut(s)	172
HpyCH4V	TGCA	5 cut(s)	96, 307, 455, 533, 717
HpyF10VI	GCNNNNNNNGC	2 cut(s)	40, 446
HpyF3I	CTNAG	3 cut(s)	30, 125, 504
HpySE526I	ACGT	1 cut(s)	172
Hsp92II	CATG	7 cut(s)	113, 212, 376, 493, 587, 770, 775
HspAI	GCGC	1 cut(s)	90
KspAI	GTTAAC	1 cut(s)	115
Kzo9I	GATC	1 cut(s)	375
LmnI	GCTCC	1 cut(s)	317
LpnPI	CCDG	7 cut(s)	53, 106, 138, 405, 450, 532, 724
Lsp1109I	GCAGC	1 cut(s)	118
LweI	GCATC	1 cut(s)	449
MaeI	CTAG	2 cut(s)	398, 576
MaeII	ACGT	1 cut(s)	172
MaeIII	GTNAC	2 cut(s)	298, 682
MalI	GATC	1 cut(s)	377
MboI	GATC	1 cut(s)	375
MboII	GAAGA	5 cut(s)	197, 419, 617, 635, 638
MhlI	GDGCHC	1 cut(s)	314
MluCI	AATT	4 cut(s)	98, 546, 587, 700
MmeI	TCCRAC	2 cut(s)	291, 521
MnlI	CCTC	3 cut(s)	156, 634, 761
MseI	TTAA	3 cut(s)	114, 674, 693
MslI	CAYNNNNRTG	2 cut(s)	71, 227
MspCI	CTTAAG	1 cut(s)	673
MspI	CCGG	1 cut(s)	519
MspR9I	CCNGG	1 cut(s)	519
MwoI	GCNNNNNNNGC	2 cut(s)	40, 446
NciI	CCSGG	1 cut(s)	519
NdeI	CATATG	1 cut(s)	451
NdeII	GATC	1 cut(s)	375
NlaIII	CATG	7 cut(s)	113, 212, 376, 493, 587, 770, 775
NlaIV	GGNNCC	1 cut(s)	565
NmuCI	GTSAC	1 cut(s)	682
NspI	RCATGY	1 cut(s)	775
PagI	TCATGA	1 cut(s)	583
PfeI	GAWTC	2 cut(s)	256, 418
PkrI	GCNGC	1 cut(s)	133
Psp124BI	GAGCTC	1 cut(s)	314
PspN4I	GGNNCC	1 cut(s)	565
RsaI	GTAC	2 cut(s)	239, 353
RsaNI	GTAC	2 cut(s)	238, 352
RseI	CAYNNNNRTG	2 cut(s)	71, 227
SacI	GAGCTC	1 cut(s)	314
SaqAI	TTAA	3 cut(s)	114, 674, 693
SatI	GCNGC	1 cut(s)	132
Sau3AI	GATC	1 cut(s)	375
ScrFI	CCNGG	1 cut(s)	519
SduI	GDGCHC	1 cut(s)	314
SfaNI	GCATC	1 cut(s)	449
SfcI	CTRYAG	2 cut(s)	435, 444
SmiMI	CAYNNNNRTG	2 cut(s)	71, 227
SmlI	CTYRAG	2 cut(s)	287, 673
SmoI	CTYRAG	2 cut(s)	287, 673
Sse9I	AATT	4 cut(s)	98, 546, 587, 700
SspMI	CTAG	2 cut(s)	398, 576
SstI	GAGCTC	1 cut(s)	314
StyD4I	CCNGG	1 cut(s)	517
StyI	CCWWGG	1 cut(s)	367
TaaI	ACNGT	1 cut(s)	480
TaiI	ACGT	1 cut(s)	175
TaqI	TCGA	2 cut(s)	161, 254
TaqII	GACCGA	1 cut(s)	701
TasI	AATT	4 cut(s)	98, 546, 587, 700
TatI	WGTACW	1 cut(s)	237
TfiI	GAWTC	2 cut(s)	256, 418
Tru1I	TTAA	3 cut(s)	114, 674, 693
Tru9I	TTAA	3 cut(s)	114, 674, 693
TscAI	CASTG	1 cut(s)	133
TseFI	GTSAC	1 cut(s)	682
TseI	GCWGC	1 cut(s)	131
Tsp45I	GTSAC	1 cut(s)	682
TspDTI	ATGAA	5 cut(s)	182, 197, 410, 600, 721
TspRI	CASTG	1 cut(s)	133
Vha464I	CTTAAG	1 cut(s)	673
XagI	CCTNNNNNAGG	1 cut(s)	396
XapI	RAATTY	1 cut(s)	587
XceI	RCATGY	1 cut(s)	775
XmiI	GTMKAC	2 cut(s)	323, 482
XspI	CTAG	2 cut(s)	398, 576

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