Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr12

Orthogroup ID

OG0002829

Physical Location & Seq

Genomic Coordinates Reverse (-)

9797935 .. 9802881

Gene Structure 4947 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

MD12G1080400.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 798 bp

ATGGAGGTCACGGACCGAGAGAATTATTTAGGAGAGGGTGTTATTGAGGCCTATTCACAAAAATCCAATGACATTGATGAACAAGAAGATCACTATGCTTCTGCGTCTTCTTCCAAGTCACAATTCAGGAAAGCGACATTGAAGGCTCGCTGGAGTGATGAGACGGGCATGGCTGAGGTTGTAGATAAAAAGGGTACAATTTGGAGGACCACGGGAATTGTTCGTAGTAGCAAGCTCTATTTCTCCATTGAGGAAGTTTTATTTTGGACATGCTGGGCTTTGCTTCTCATGGATAATGGTGATATTAGCCTTTCCTTGGAAGACATGTATGTGAAGATTTCAAATGGAAAGCACGGGTGCAGTTGGGAGGAATTTCAAGCTTATAAGCAACTCAAATCTCTTGGTTACATTGTTGGGCGGCATGGTGTCCCCTGGTCTATGAAGATTGTGAAGAGTAATCATGAATCTGTTTCTTCTTATGGTTGCCGTGACCATGATGAGGCAGTGGACTTGGATTCAGAAGAGTCTAGGTCTGTCATTGGATTGTTCAATGAGATGCAAATTAATGAAGTAAGGCTGGTTTTTGATGTTTATCTCCCAAACAGCAAGTTCAGGAAGTCTTCTCCTGGTGACCCAAGTTTTGTGCTCTGCTTTACCAGGGGTCATCCACCATCCAAAGCAGACCTAGAAGCCCTCGAGAGACGATGCGGGAACATTCCCGTGAAGGTTTGTCATGTGGAGCAGGGGATTGTGAGTTTATTTTCCTTTGACAAGGTGGAACTTCCAATTCTTCCTTGA

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

tRNA_int_end_N2

Protein Analysis

266

Amino Acids

30.05

Weight (kDa)

5.35

Isoelectric Point (pI)

40.5

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
tRNA_int_end_N2	PF12928	36 - 88	1.5e-08	tRNA-splicing endonuclease subunit sen54 N-term

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

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0002829)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G02370 AT3G02370 AT3G02370 AT3G02370 AT3G57360
fragaria_vesca	FvH4_6g24380 FvH4_6g24380 FvH4_6g24380 FvH4_6g24380 FvH4_6g24380 FvH4_6g24380 FvH4_6g24380 FvH4_6g24380
malus_domestica	MD12G1080400.v1.1 MD14G1076600.v1.1
prunus_persica	Prupe.5G048800_v2.0.a1 Prupe.5G048800_v2.0.a1 Prupe.5G048800_v2.0.a1 Prupe.5G048800_v2.0.a1 Prupe.5G048800_v2.0.a1 Prupe.5G048800_v2.0.a1 Prupe.7G055000_v2.0.a1
pyrus_communis	pycom12g06700 pycom14g06490
rosa_chinensis	RchiOBHm_Chr3g0483371
rosa_laevigata	RLG00000023291
rosa_multiflora	Rmu_co8010216.1_g000001 Rmu_sc0006349.1_g000013
rosa_roxburghii	Rroxscaffold_6G00398410
rosa_rugosa	Rorug03G0205200.1 Rorug03G0205300.1 Rorug03G0205400.1 Rorug03G0205500
rosa_samantha	Rh3AG253800 Rh3BG290900 Rh3CG287900 Rh3DG283700 Rh6CG217700
rosa_wichuraiana	Rw0G023700

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	384
AciI	CCGC	2 cut(s)	418, 708
AcsI	RAATTY	1 cut(s)	371
AfaI	GTAC	1 cut(s)	196
AfiI	CCNNNNNNNGG	2 cut(s)	316, 499
AflIII	ACRYGT	1 cut(s)	324
AgsI	TTSAA	4 cut(s)	142, 342, 377, 550
AjnI	CCWGG	3 cut(s)	431, 625, 656
AjuI	GAANNNNNNNTTGG	2 cut(s)	107, 139
AluBI	AGCT	2 cut(s)	235, 380
AluI	AGCT	2 cut(s)	235, 380
Alw21I	GWGCWC	1 cut(s)	648
Alw26I	GTCTC	2 cut(s)	155, 694
Ama87I	CYCGRG	1 cut(s)	695
AoxI	GGCC	1 cut(s)	48
ApoI	RAATTY	1 cut(s)	371
ArsI	GACNNNNNNTTYG	2 cut(s)	623, 655
AseI	ATTAAT	1 cut(s)	564
AspS9I	GGNCC	2 cut(s)	13, 207
AsuHPI	GGTGA	2 cut(s)	311, 641
AvaI	CYCGRG	1 cut(s)	695
AvaII	GGWCC	2 cut(s)	13, 207
BbsI	GAAGAC	3 cut(s)	99, 327, 612
Bbv12I	GWGCWC	1 cut(s)	648
BbvCI	CCTCAGC	1 cut(s)	174
BccI	CCATC	1 cut(s)	679
BceAI	ACGGC	1 cut(s)	471
BciT130I	CCWGG	3 cut(s)	433, 627, 658
BcoDI	GTCTC	2 cut(s)	155, 694
BfaI	CTAG	2 cut(s)	528, 686
BisI	GCNGC	1 cut(s)	419
BlsI	GCNGC	1 cut(s)	420
Bme1390I	CCNGG	3 cut(s)	433, 627, 658
Bme18I	GGWCC	2 cut(s)	13, 207
BmeT110I	CYCGRG	1 cut(s)	695
BmgT120I	GGNCC	2 cut(s)	13, 207
BmrFI	CCNGG	3 cut(s)	433, 627, 658
BmsI	GCATC	2 cut(s)	546, 695
BpiI	GAAGAC	3 cut(s)	99, 327, 612
BpmI	CTGGAG	1 cut(s)	172
Bpu10I	CCTNAGC	1 cut(s)	174
BsaBI	GATNNNNATC	1 cut(s)	591
BsaJI	CCNNGG	4 cut(s)	210, 315, 431, 657
BsaXI	ACNNNNNCTCC	2 cut(s)	24, 54
Bsc4I	CCNNNNNNNGG	2 cut(s)	316, 499
Bse8I	GATNNNNATC	1 cut(s)	591
BseBI	CCWGG	3 cut(s)	433, 627, 658
BseDI	CCNNGG	4 cut(s)	210, 315, 431, 657
BseGI	GGATG	2 cut(s)	664, 671
BseJI	GATNNNNATC	1 cut(s)	591
BseLI	CCNNNNNNNGG	2 cut(s)	316, 499
BseMII	CTCAG	1 cut(s)	165
BseYI	CCCAGC	1 cut(s)	273
BsgI	GTGCAG	1 cut(s)	379
BshFI	GGCC	1 cut(s)	50
BsiHKAI	GWGCWC	1 cut(s)	648
BsiHKCI	CYCGRG	1 cut(s)	695
BslFI	GGGAC	1 cut(s)	413
BslI	CCNNNNNNNGG	2 cut(s)	316, 499
BsmAI	GTCTC	2 cut(s)	155, 694
BsmBI	CGTCTC	2 cut(s)	155, 694
BsmFI	GGGAC	1 cut(s)	413
BsnI	GGCC	1 cut(s)	50
BsoBI	CYCGRG	1 cut(s)	695
Bsp1286I	GDGCHC	1 cut(s)	648
Bsp143I	GATC	1 cut(s)	88
BspACI	CCGC	2 cut(s)	418, 708
BspANI	GGCC	1 cut(s)	50
BspCNI	CTCAG	1 cut(s)	166
BspHI	TCATGA	1 cut(s)	460
BssECI	CCNNGG	4 cut(s)	210, 315, 431, 657
BssMI	GATC	1 cut(s)	88
BssT1I	CCWWGG	1 cut(s)	315
Bst2UI	CCWGG	3 cut(s)	433, 627, 658
Bst6I	CTCTTC	2 cut(s)	446, 516
BstC8I	GCNNGC	2 cut(s)	148, 233
BstDEI	CTNAG	1 cut(s)	174
BstDSI	CCRYGG	1 cut(s)	210
BstEII	GGTNACC	1 cut(s)	629
BstF5I	GGATG	2 cut(s)	664, 671
BstKTI	GATC	1 cut(s)	91
BstMAI	GTCTC	2 cut(s)	155, 694
BstMBI	GATC	1 cut(s)	88
BstNI	CCWGG	3 cut(s)	433, 627, 658
BstNSI	RCATGY	2 cut(s)	273, 328
BstPI	GGTNACC	1 cut(s)	629
BstSCI	CCNGG	3 cut(s)	431, 625, 656
BstV2I	GAAGAC	3 cut(s)	99, 327, 612
BsuRI	GGCC	1 cut(s)	50
BtgI	CCRYGG	1 cut(s)	210
BtsCI	GGATG	2 cut(s)	664, 671
BtsI	GCAGTG	1 cut(s)	510
BtsIMutI	CAGTG	1 cut(s)	510
Cac8I	GCNNGC	2 cut(s)	148, 233
CciI	TCATGA	1 cut(s)	460
Cfr13I	GGNCC	2 cut(s)	13, 207
CpoI	CGGWCCG	1 cut(s)	13
CseI	GACGC	1 cut(s)	93
Csp6I	GTAC	1 cut(s)	195
CspCI	CAANNNNNGTGG	2 cut(s)	199, 234
CspI	CGGWCCG	1 cut(s)	13
CviAII	CATG	8 cut(s)	169, 270, 289, 325, 422, 461, 494, 734
CviJI	RGCY	9 cut(s)	50, 146, 173, 235, 278, 309, 380, 577, 692
CviKI_1	RGCY	9 cut(s)	50, 146, 173, 235, 278, 309, 380, 577, 692
CviQI	GTAC	1 cut(s)	195
DdeI	CTNAG	1 cut(s)	174
DpnI	GATC	1 cut(s)	90
DpnII	GATC	1 cut(s)	88
Eam1104I	CTCTTC	2 cut(s)	446, 516
EarI	CTCTTC	2 cut(s)	446, 516
Eco130I	CCWWGG	1 cut(s)	315
Eco147I	AGGCCT	1 cut(s)	50
Eco47I	GGWCC	2 cut(s)	13, 207
Eco88I	CYCGRG	1 cut(s)	695
Eco91I	GGTNACC	1 cut(s)	629
EcoO65I	GGTNACC	1 cut(s)	629
EcoRII	CCWGG	3 cut(s)	431, 625, 656
EcoT14I	CCWWGG	1 cut(s)	315
ErhI	CCWWGG	1 cut(s)	315
Esp3I	CGTCTC	2 cut(s)	155, 694
FaeI	CATG	8 cut(s)	172, 273, 292, 328, 425, 464, 497, 737
FaqI	GGGAC	1 cut(s)	413
FatI	CATG	8 cut(s)	168, 269, 288, 324, 421, 460, 493, 733
FauI	CCCGC	1 cut(s)	701
Fnu4HI	GCNGC	1 cut(s)	419
FokI	GGATG	2 cut(s)	651, 658
Fsp4HI	GCNGC	1 cut(s)	419
FspBI	CTAG	2 cut(s)	528, 686
GluI	GCNGC	1 cut(s)	419
GsaI	CCCAGC	1 cut(s)	277
GsuI	CTGGAG	1 cut(s)	172
HaeIII	GGCC	1 cut(s)	50
HgaI	GACGC	1 cut(s)	93
Hin1II	CATG	8 cut(s)	172, 273, 292, 328, 425, 464, 497, 737
HindIII	AAGCTT	1 cut(s)	378
HinfI	GANTC	3 cut(s)	464, 515, 524
HphI	GGTGA	2 cut(s)	311, 641
Hpy166II	GTNNAC	1 cut(s)	508
Hpy188I	TCNGA	1 cut(s)	520
Hpy188III	TCNNGA	4 cut(s)	127, 461, 613, 697
Hpy8I	GTNNAC	1 cut(s)	508
HpyAV	CCTTC	2 cut(s)	136, 718
HpyCH4V	TGCA	2 cut(s)	360, 559
HpyF3I	CTNAG	1 cut(s)	174
Hsp92II	CATG	8 cut(s)	172, 273, 292, 328, 425, 464, 497, 737
Kzo9I	GATC	1 cut(s)	88
LmnI	GCTCC	1 cut(s)	739
LweI	GCATC	2 cut(s)	546, 695
MaeI	CTAG	2 cut(s)	528, 686
MaeIII	GTNAC	5 cut(s)	7, 117, 404, 488, 629
MalI	GATC	1 cut(s)	90
MboI	GATC	1 cut(s)	88
MhlI	GDGCHC	1 cut(s)	648
MluCI	AATT	7 cut(s)	22, 122, 198, 216, 371, 561, 786
MlyI	GAGTC	1 cut(s)	533
MnlI	CCTC	8 cut(s)	28, 40, 169, 198, 244, 361, 493, 704
MseI	TTAA	1 cut(s)	564
MslI	CAYNNNNRTG	2 cut(s)	329, 719
MspR9I	CCNGG	3 cut(s)	433, 627, 658
MvaI	CCWGG	3 cut(s)	433, 627, 658
NdeII	GATC	1 cut(s)	88
NlaIII	CATG	8 cut(s)	172, 273, 292, 328, 425, 464, 497, 737
NmuCI	GTSAC	4 cut(s)	7, 117, 488, 629
NspI	RCATGY	2 cut(s)	273, 328
PaeR7I	CTCGAG	1 cut(s)	695
PagI	TCATGA	1 cut(s)	460
PceI	AGGCCT	1 cut(s)	50
PciI	ACATGT	1 cut(s)	324
PfeI	GAWTC	2 cut(s)	464, 515
PkrI	GCNGC	1 cut(s)	420
PleI	GAGTC	1 cut(s)	532
PpsI	GAGTC	1 cut(s)	532
PscI	ACATGT	1 cut(s)	324
PshBI	ATTAAT	1 cut(s)	564
PsiI	TTATAA	1 cut(s)	384
Psp6I	CCWGG	3 cut(s)	431, 625, 656
PspEI	GGTNACC	1 cut(s)	629
PspFI	CCCAGC	1 cut(s)	273
PspGI	CCWGG	3 cut(s)	431, 625, 656
PspPI	GGNCC	2 cut(s)	13, 207
RsaI	GTAC	1 cut(s)	196
RsaNI	GTAC	1 cut(s)	195
RseI	CAYNNNNRTG	2 cut(s)	329, 719
Rsr2I	CGGWCCG	1 cut(s)	13
RsrII	CGGWCCG	1 cut(s)	13
SaqAI	TTAA	1 cut(s)	564
SatI	GCNGC	1 cut(s)	419
Sau3AI	GATC	1 cut(s)	88
Sau96I	GGNCC	2 cut(s)	13, 207
SchI	GAGTC	1 cut(s)	533
ScrFI	CCNGG	3 cut(s)	433, 627, 658
SduI	GDGCHC	1 cut(s)	648
SetI	ASST	8 cut(s)	9, 180, 237, 382, 533, 687, 729, 777
SfaNI	GCATC	2 cut(s)	546, 695
Sfr274I	CTCGAG	1 cut(s)	695
SinI	GGWCC	2 cut(s)	13, 207
SlaI	CTCGAG	1 cut(s)	695
SmiMI	CAYNNNNRTG	2 cut(s)	329, 719
SmlI	CTYRAG	1 cut(s)	695
SmoI	CTYRAG	1 cut(s)	695
Sse9I	AATT	7 cut(s)	22, 122, 198, 216, 371, 561, 786
SseBI	AGGCCT	1 cut(s)	50
SsiI	CCGC	2 cut(s)	418, 708
SspMI	CTAG	2 cut(s)	528, 686
StuI	AGGCCT	1 cut(s)	50
StyD4I	CCNGG	3 cut(s)	431, 625, 656
StyI	CCWWGG	1 cut(s)	315
TaqI	TCGA	1 cut(s)	696
TaqII	GACCGA	1 cut(s)	30
TasI	AATT	7 cut(s)	22, 122, 198, 216, 371, 561, 786
TauI	GCSGC	1 cut(s)	421
TfiI	GAWTC	2 cut(s)	464, 515
Tru1I	TTAA	1 cut(s)	564
Tru9I	TTAA	1 cut(s)	564
TscAI	CASTG	1 cut(s)	510
TseFI	GTSAC	4 cut(s)	7, 117, 488, 629
Tsp45I	GTSAC	4 cut(s)	7, 117, 488, 629
TspDTI	ATGAA	4 cut(s)	93, 455, 477, 582
TspGWI	ACGGA	1 cut(s)	26
TspRI	CASTG	1 cut(s)	510
VpaK11BI	GGWCC	2 cut(s)	13, 207
VspI	ATTAAT	1 cut(s)	564
XapI	RAATTY	1 cut(s)	371
XceI	RCATGY	2 cut(s)	273, 328
XhoI	CTCGAG	1 cut(s)	695
XspI	CTAG	2 cut(s)	528, 686

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