Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5A

Orthogroup ID

OG0001172

Physical Location & Seq

Genomic Coordinates Reverse (-)

14855258 .. 14861086

Gene Structure 5829 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5AG142200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 828 bp

ATGGCAGTGTCCAGAAAGACAGCAATGACAATTAAATCTTACCAAAATCAGGCTGAAACGCTGGTTAAAAGCTACTTACTAGCGGATCCGTTTATGCCATATACTTCCGTTCTTGGAGGAATATTTTTGTGCAAAATGGTGTATGATCTTACCCAGTTAATTAGTACCTTTTACATCAAGAGTTATGCTAGTCTTACAAAAATCCAACGAATTGAGTGGAACAGTCGAGGAATCTCTACCATCCATGCCCTTTTTATCACAGTTCTATCCTTGTACCTTGTTTTCTGGTCCGATCTCTTTTCAGACCAACAGCTTGCTGGCCTTGTTACATTTCGAAGCTCACCATTGTCTGTTTTTGGATTAGGGGTCTCTGTTGGGTACTTCTGTGCGGATCTAGGAATGCTACTGTGGCTATACCCTTCTTTAGGTGGAATGGAGTATGTCCTCCATCACTCACTTTCTGGAATTGCAGTAGCATACTCAATGTTTTCTGGGGAAGGGCAACTTTATACATACATGATACTCATCTCTGAGATCACTACTCCAGAGATCAATATGAGATGGTATCTTGATACAGCTGGTATGAAGAGGTCCAGTGCATATCTCATTAATGGCATTGTGATATTTTTTTCATGGCTGGGGGCAAGAATTCTGCTGTTCGGTTACATGTTTTACCATGTTTACTTGCACTATGATCAGGTCATCCAGATGCACCCCTTTGGATATCTGTTGGTCTTTGCTGTACCAGCAGTGCTAGCAATAATGAACTTGATGTGGTTTGGAAAGATTATCAAGGGGTTGATGAAGCAATTAGCGAAGACGCAATGA

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

275

Amino Acids

31.26

Weight (kDa)

9.03

Isoelectric Point (pI)

40.78

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TRAM_LAG1_CLN8	PF03798	72 - 265	5e-31	TLC domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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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)
AciI	CCGC	2 cut(s)	83, 389
AclWI	GGATC	3 cut(s)	80, 93, 399
AcsI	RAATTY	1 cut(s)	648
AfaI	GTAC	4 cut(s)	166, 275, 380, 744
AfiI	CCNNNNNNNGG	2 cut(s)	49, 425
AflIII	ACRYGT	1 cut(s)	666
AluBI	AGCT	4 cut(s)	72, 313, 339, 578
AluI	AGCT	4 cut(s)	72, 313, 339, 578
Alw26I	GTCTC	1 cut(s)	373
AlwI	GGATC	3 cut(s)	80, 93, 399
AoxI	GGCC	1 cut(s)	319
ApoI	RAATTY	1 cut(s)	648
AseI	ATTAAT	1 cut(s)	609
AspS9I	GGNCC	2 cut(s)	288, 591
AsuHPI	GGTGA	1 cut(s)	333
AsuII	TTCGAA	1 cut(s)	334
AsuNHI	GCTAGC	1 cut(s)	754
AvaII	GGWCC	2 cut(s)	288, 591
BaeI	ACNNNNGTAYC	2 cut(s)	370, 403
BamHI	GGATCC	1 cut(s)	85
BbsI	GAAGAC	1 cut(s)	824
BccI	CCATC	3 cut(s)	248, 456, 555
BclI	TGATCA	1 cut(s)	694
BcoDI	GTCTC	1 cut(s)	373
BfaI	CTAG	4 cut(s)	80, 189, 395, 755
Bme18I	GGWCC	2 cut(s)	288, 591
BmgT120I	GGNCC	2 cut(s)	288, 591
BmiI	GGNNCC	1 cut(s)	87
BmrI	ACTGGG	1 cut(s)	148
BmsI	GCATC	1 cut(s)	699
BmtI	GCTAGC	1 cut(s)	758
BmuI	ACTGGG	1 cut(s)	148
BpiI	GAAGAC	1 cut(s)	824
BpmI	CTGGAG	1 cut(s)	528
Bpu14I	TTCGAA	1 cut(s)	334
BsaBI	GATNNNNATC	1 cut(s)	524
BsaI	GGTCTC	1 cut(s)	373
Bsc4I	CCNNNNNNNGG	2 cut(s)	49, 425
Bse1I	ACTGG	2 cut(s)	154, 594
Bse3DI	GCAATG	1 cut(s)	30
Bse8I	GATNNNNATC	1 cut(s)	524
BseGI	GGATG	2 cut(s)	240, 702
BseJI	GATNNNNATC	1 cut(s)	524
BseLI	CCNNNNNNNGG	2 cut(s)	49, 425
BseMI	GCAATG	1 cut(s)	30
BseMII	CTCAG	1 cut(s)	522
BseNI	ACTGG	2 cut(s)	154, 594
BseYI	CCCAGC	1 cut(s)	637
BshFI	GGCC	1 cut(s)	321
BslI	CCNNNNNNNGG	2 cut(s)	49, 425
BsmAI	GTCTC	1 cut(s)	373
BsmI	GAATGC	1 cut(s)	405
BsnI	GGCC	1 cut(s)	321
Bso31I	GGTCTC	1 cut(s)	373
Bsp119I	TTCGAA	1 cut(s)	334
Bsp143I	GATC	7 cut(s)	85, 145, 292, 391, 534, 549, 694
BspACI	CCGC	2 cut(s)	83, 389
BspANI	GGCC	1 cut(s)	321
BspCNI	CTCAG	1 cut(s)	523
BspLI	GGNNCC	1 cut(s)	87
BspOI	GCTAGC	1 cut(s)	758
BspPI	GGATC	3 cut(s)	80, 93, 399
BspT104I	TTCGAA	1 cut(s)	334
BspTNI	GGTCTC	1 cut(s)	373
BsrDI	GCAATG	1 cut(s)	30
BsrI	ACTGG	2 cut(s)	154, 594
BssMI	GATC	7 cut(s)	85, 145, 292, 391, 534, 549, 694
Bst4CI	ACNGT	3 cut(s)	224, 262, 408
Bst6I	CTCTTC	1 cut(s)	581
BstBI	TTCGAA	1 cut(s)	334
BstC8I	GCNNGC	3 cut(s)	315, 319, 756
BstDEI	CTNAG	1 cut(s)	531
BstENI	CCTNNNNNAGG	1 cut(s)	423
BstF5I	GGATG	2 cut(s)	240, 702
BstKTI	GATC	7 cut(s)	88, 148, 295, 394, 537, 552, 697
BstMAI	GTCTC	1 cut(s)	373
BstMBI	GATC	7 cut(s)	85, 145, 292, 391, 534, 549, 694
BstMWI	GCNNNNNNNGC	3 cut(s)	409, 746, 755
BstNSI	RCATGY	1 cut(s)	670
BstV2I	GAAGAC	1 cut(s)	824
BstX2I	RGATCY	2 cut(s)	85, 391
BstYI	RGATCY	2 cut(s)	85, 391
BsuRI	GGCC	1 cut(s)	321
BtsCI	GGATG	2 cut(s)	240, 702
BtsI	GCAGTG	2 cut(s)	12, 756
BtsIMutI	CAGTG	3 cut(s)	12, 601, 756
Cac8I	GCNNGC	3 cut(s)	315, 319, 756
Cfr13I	GGNCC	2 cut(s)	288, 591
Csp6I	GTAC	4 cut(s)	165, 274, 379, 743
CviAII	CATG	5 cut(s)	245, 517, 633, 667, 677
CviJI	RGCY	8 cut(s)	53, 72, 313, 321, 339, 412, 578, 637
CviKI_1	RGCY	8 cut(s)	53, 72, 313, 321, 339, 412, 578, 637
CviQI	GTAC	4 cut(s)	165, 274, 379, 743
DdeI	CTNAG	1 cut(s)	531
DpnI	GATC	7 cut(s)	87, 147, 294, 393, 536, 551, 696
DpnII	GATC	7 cut(s)	85, 145, 292, 391, 534, 549, 694
Eam1104I	CTCTTC	1 cut(s)	581
EarI	CTCTTC	1 cut(s)	581
Eco31I	GGTCTC	1 cut(s)	373
Eco32I	GATATC	1 cut(s)	725
Eco47I	GGWCC	2 cut(s)	288, 591
EcoNI	CCTNNNNNAGG	1 cut(s)	423
EcoRI	GAATTC	1 cut(s)	648
EcoRV	GATATC	1 cut(s)	725
FaeI	CATG	5 cut(s)	248, 520, 636, 670, 680
FalI	AAGNNNNNCTT	2 cut(s)	489, 521
FatI	CATG	5 cut(s)	244, 516, 632, 666, 676
FbaI	TGATCA	1 cut(s)	694
FokI	GGATG	2 cut(s)	227, 689
FspBI	CTAG	4 cut(s)	80, 189, 395, 755
GsaI	CCCAGC	1 cut(s)	641
GsuI	CTGGAG	1 cut(s)	528
HaeIII	GGCC	1 cut(s)	321
Hin1II	CATG	5 cut(s)	248, 520, 636, 670, 680
HinfI	GANTC	1 cut(s)	231
HphI	GGTGA	1 cut(s)	333
Hpy166II	GTNNAC	1 cut(s)	682
Hpy188I	TCNGA	3 cut(s)	292, 304, 532
Hpy188III	TCNNGA	6 cut(s)	12, 178, 462, 545, 569, 706
Hpy8I	GTNNAC	1 cut(s)	682
HpyAV	CCTTC	2 cut(s)	429, 491
HpyCH4III	ACNGT	3 cut(s)	224, 262, 408
HpyCH4V	TGCA	5 cut(s)	132, 470, 599, 688, 712
HpyF10VI	GCNNNNNNNGC	3 cut(s)	409, 746, 755
HpyF3I	CTNAG	1 cut(s)	531
Hsp92II	CATG	5 cut(s)	248, 520, 636, 670, 680
Ksp22I	TGATCA	1 cut(s)	694
Kzo9I	GATC	7 cut(s)	85, 145, 292, 391, 534, 549, 694
LweI	GCATC	1 cut(s)	699
MaeI	CTAG	4 cut(s)	80, 189, 395, 755
MaeIII	GTNAC	2 cut(s)	325, 662
MalI	GATC	7 cut(s)	87, 147, 294, 393, 536, 551, 696
MboI	GATC	7 cut(s)	85, 145, 292, 391, 534, 549, 694
MboII	GAAGA	1 cut(s)	598
MflI	RGATCY	2 cut(s)	85, 391
MluCI	AATT	6 cut(s)	30, 159, 210, 465, 648, 809
MmeI	TCCRAC	1 cut(s)	229
MnlI	CCTC	4 cut(s)	110, 221, 455, 582
MseI	TTAA	4 cut(s)	33, 66, 158, 609
MslI	CAYNNNNRTG	1 cut(s)	707
MspA1I	CMGCKG	1 cut(s)	578
Mva1269I	GAATGC	1 cut(s)	405
MwoI	GCNNNNNNNGC	3 cut(s)	409, 746, 755
NdeII	GATC	7 cut(s)	85, 145, 292, 391, 534, 549, 694
NheI	GCTAGC	1 cut(s)	754
NlaIII	CATG	5 cut(s)	248, 520, 636, 670, 680
NlaIV	GGNNCC	1 cut(s)	87
NspI	RCATGY	1 cut(s)	670
NspV	TTCGAA	1 cut(s)	334
PciI	ACATGT	1 cut(s)	666
PctI	GAATGC	1 cut(s)	405
PfeI	GAWTC	1 cut(s)	231
PscI	ACATGT	1 cut(s)	666
PshBI	ATTAAT	1 cut(s)	609
PspFI	CCCAGC	1 cut(s)	637
PspN4I	GGNNCC	1 cut(s)	87
PspPI	GGNCC	2 cut(s)	288, 591
PsuI	RGATCY	2 cut(s)	85, 391
PvuII	CAGCTG	1 cut(s)	578
RsaI	GTAC	4 cut(s)	166, 275, 380, 744
RsaNI	GTAC	4 cut(s)	165, 274, 379, 743
RseI	CAYNNNNRTG	1 cut(s)	707
SaqAI	TTAA	4 cut(s)	33, 66, 158, 609
Sau3AI	GATC	7 cut(s)	85, 145, 292, 391, 534, 549, 694
Sau96I	GGNCC	2 cut(s)	288, 591
SetI	ASST	9 cut(s)	74, 170, 279, 315, 341, 430, 580, 593, 702
SfaNI	GCATC	1 cut(s)	699
SfuI	TTCGAA	1 cut(s)	334
SinI	GGWCC	2 cut(s)	288, 591
SmiMI	CAYNNNNRTG	1 cut(s)	707
Sse9I	AATT	6 cut(s)	30, 159, 210, 465, 648, 809
SsiI	CCGC	2 cut(s)	83, 389
SspI	AATATT	1 cut(s)	123
SspMI	CTAG	4 cut(s)	80, 189, 395, 755
TaaI	ACNGT	3 cut(s)	224, 262, 408
TaqI	TCGA	2 cut(s)	226, 334
TasI	AATT	6 cut(s)	30, 159, 210, 465, 648, 809
TfiI	GAWTC	1 cut(s)	231
Tru1I	TTAA	4 cut(s)	33, 66, 158, 609
Tru9I	TTAA	4 cut(s)	33, 66, 158, 609
TscAI	CASTG	3 cut(s)	12, 601, 756
TspDTI	ATGAA	4 cut(s)	599, 621, 779, 818
TspGWI	ACGGA	2 cut(s)	78, 97
TspRI	CASTG	3 cut(s)	12, 601, 756
VpaK11BI	GGWCC	2 cut(s)	288, 591
VspI	ATTAAT	1 cut(s)	609
XagI	CCTNNNNNAGG	1 cut(s)	423
XapI	RAATTY	1 cut(s)	648
XceI	RCATGY	1 cut(s)	670
XcmI	CCANNNNNNNNNTGG	1 cut(s)	314
XspI	CTAG	4 cut(s)	80, 189, 395, 755

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