Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr11

Orthogroup ID

OG0004276

Physical Location & Seq

Genomic Coordinates Forward (+)

11415186 .. 11416342

Gene Structure 1157 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

MD11G1124300.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 483 bp

ATGTCAAAGATAGTATTGAAGCTTCAGTCATCTCTAATCCAATCAGATGCCCGAGGAATCTTATGCGGGAGCAGCGTACTTCTTGCTGCAGAAGAAGAACAAGCCCTTCTCTTCAGTCGTGCCTACTTTGGCCACCCGATTGTTAATGCCGATAAGGATAGGCAGTGGTTTCAGTTGGGCATGGAAGAGGCATTTTTCCTGTGCTATTCTTTAAAATGCCTCAAGATAGCGGGCGAAGACAAACGCCCGAAGGACGATCAAGAGCTTTGGCAGTGCATGAAGTCCGAAAAAGCGGGATTTCCTGTATTTTACAAGGCGTATTCTCACCTTCGAACGAAAAATTGGGTTGTGAGACCCGGACTTCAATATGGTGCGGACTTTGTTGCTTACCGTCACCATCCGAGTTTGGTCCATTCTGAATATGCTGTGCTCGTGTCATCAGAAGGAGATGCTGAAGCAAATGGGCGATTGAATGGGTTGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000213 GO:0000214 GO:0000278 GO:0000281 GO:0000379 GO:0000394 GO:0000910 GO:0003006 GO:0003674 GO:0003824 GO:0004518 GO:0004519 GO:0004521 GO:0004540 GO:0004549 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006139 GO:0006388 GO:0006396 GO:0006399 GO:0006725 GO:0006807 GO:0007049 GO:0007275 GO:0008033 GO:0008150 GO:0008152 GO:0008356 GO:0008380 GO:0009790 GO:0009791 GO:0009793 GO:0009987 GO:0010069 GO:0010070 GO:0010154 GO:0010467 GO:0016070 GO:0016787 GO:0016788 GO:0016892 GO:0016894 GO:0022402 GO:0022414 GO:0032501 GO:0032502 GO:0032991 GO:0034470 GO:0034641 GO:0034660 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0046483 GO:0048316 GO:0048608 GO:0048731 GO:0048856 GO:0051301 GO:0061458 GO:0061640 GO:0071704 GO:0090304 GO:0090305 GO:0090501 GO:0090502 GO:0140098 GO:0140101 GO:1901360 GO:1902494 GO:1902555 GO:1903047 GO:1905348

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

tRNA_int_endo tRNA_int_endo_N

Protein Analysis

161

Amino Acids

18.08

Weight (kDa)

6.95

Isoelectric Point (pI)

46.19

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
tRNA_int_endo_N	PF02778	18 - 90	2.4e-11	tRNA intron endonuclease, N-terminal domain
tRNA_int_endo	PF01974	104 - 150	2.1e-15	tRNA intron endonuclease, catalytic C-terminal domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0004276)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G38890
fragaria_vesca	FvH4_6g01503 FvH4_6g01503 FvH4_6g01503 FvH4_6g01503 FvH4_6g01510
malus_domestica	MD11G1123700.v1.1 MD11G1124300.v1.1 MD12G1250600.v1.1
prunus_persica	Prupe.6G093000_v2.0.a1 Prupe.6G093000_v2.0.a1 Prupe.6G352700_v2.0.a1 Prupe.6G352700_v2.0.a1
pyrus_communis	pycom11g10450 pycom12g23060
rosa_chinensis	RchiOBHm_Chr3g0449171 RchiOBHm_Chr3g0449181 RchiOBHm_Chr5g0061031
rosa_laevigata	RLG00000035421
rosa_multiflora	Rmu_co8387241.1_g000001 Rmu_sc0000640.1_g000004 Rmu_sc0004874.1_g000009 Rmu_sc0006661.1_g000007
rosa_roxburghii	Rroxscaffold_1G00019610 Rroxscaffold_6G00427230
rosa_rugosa	Rorug02G0618600 Rorug05G0336200
rosa_samantha	Rh1AG412000 Rh3AG016900
rosa_wichuraiana	Rw3G001270 Rw3G001280 Rw5G037580

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	4 cut(s)	66, 230, 293, 374
AcoI	YGGCCR	1 cut(s)	130
AcuI	CTGAAG	3 cut(s)	8, 97, 474
AfaI	GTAC	1 cut(s)	78
AgsI	TTSAA	3 cut(s)	19, 365, 472
AjuI	GAANNNNNNNTTGG	2 cut(s)	325, 357
AluBI	AGCT	2 cut(s)	22, 265
AluI	AGCT	2 cut(s)	22, 265
Alw21I	GWGCWC	1 cut(s)	432
Alw26I	GTCTC	1 cut(s)	346
Ama87I	CYCGRG	1 cut(s)	51
AoxI	GGCC	1 cut(s)	130
ApeKI	GCWGC	2 cut(s)	72, 86
AspS9I	GGNCC	1 cut(s)	409
AsuC2I	CCSGG	1 cut(s)	357
AsuHPI	GGTGA	2 cut(s)	317, 386
AsuII	TTCGAA	1 cut(s)	331
AvaI	CYCGRG	1 cut(s)	51
AvaII	GGWCC	1 cut(s)	409
BalI	TGGCCA	1 cut(s)	132
BarI	GAAGNNNNNNTAC	1 cut(s)	38
BauI	CACGAG	1 cut(s)	431
BbsI	GAAGAC	1 cut(s)	243
Bbv12I	GWGCWC	1 cut(s)	432
BbvI	GCAGC	2 cut(s)	73, 84
BccI	CCATC	1 cut(s)	405
BcnI	CCSGG	1 cut(s)	357
BcoDI	GTCTC	1 cut(s)	346
BfmI	CTRYAG	1 cut(s)	87
BisI	GCNGC	2 cut(s)	73, 87
BlsI	GCNGC	2 cut(s)	74, 88
Bme1390I	CCNGG	1 cut(s)	357
Bme18I	GGWCC	1 cut(s)	409
BmeT110I	CYCGRG	1 cut(s)	51
BmgT120I	GGNCC	1 cut(s)	409
BmrFI	CCNGG	1 cut(s)	357
BmsI	GCATC	2 cut(s)	37, 439
BpiI	GAAGAC	1 cut(s)	243
Bpu14I	TTCGAA	1 cut(s)	331
BpuEI	CTTGAG	1 cut(s)	206
BpuMI	CCSGG	1 cut(s)	357
BsaI	GGTCTC	1 cut(s)	346
BsaJI	CCNNGG	1 cut(s)	52
BseDI	CCNNGG	1 cut(s)	52
BseGI	GGATG	1 cut(s)	397
BseXI	GCAGC	2 cut(s)	73, 84
BshFI	GGCC	1 cut(s)	132
BsiHKAI	GWGCWC	1 cut(s)	432
BsiHKCI	CYCGRG	1 cut(s)	51
BsiSI	CCGG	1 cut(s)	357
BsmAI	GTCTC	1 cut(s)	346
BsnI	GGCC	1 cut(s)	132
Bso31I	GGTCTC	1 cut(s)	346
BsoBI	CYCGRG	1 cut(s)	51
Bsp119I	TTCGAA	1 cut(s)	331
Bsp1286I	GDGCHC	1 cut(s)	432
Bsp143I	GATC	1 cut(s)	256
BspACI	CCGC	4 cut(s)	66, 230, 293, 374
BspANI	GGCC	1 cut(s)	132
BspMAI	CTGCAG	1 cut(s)	91
BspT104I	TTCGAA	1 cut(s)	331
BspTNI	GGTCTC	1 cut(s)	346
BssECI	CCNNGG	1 cut(s)	52
BssMI	GATC	1 cut(s)	256
BssSI	CACGAG	1 cut(s)	431
Bst2BI	CACGAG	1 cut(s)	431
Bst4CI	ACNGT	1 cut(s)	392
Bst6I	CTCTTC	2 cut(s)	116, 180
BstBI	TTCGAA	1 cut(s)	331
BstC8I	GCNNGC	1 cut(s)	232
BstF5I	GGATG	1 cut(s)	397
BstKTI	GATC	1 cut(s)	259
BstMAI	GTCTC	1 cut(s)	346
BstMBI	GATC	1 cut(s)	256
BstMWI	GCNNNNNNNGC	1 cut(s)	72
BstSCI	CCNGG	1 cut(s)	355
BstSFI	CTRYAG	1 cut(s)	87
BstV1I	GCAGC	2 cut(s)	73, 84
BstV2I	GAAGAC	1 cut(s)	243
BsuRI	GGCC	1 cut(s)	132
BtsCI	GGATG	1 cut(s)	397
BtsI	GCAGTG	2 cut(s)	170, 278
BtsIMutI	CAGTG	2 cut(s)	170, 278
Cac8I	GCNNGC	1 cut(s)	232
Cfr13I	GGNCC	1 cut(s)	409
Csp6I	GTAC	1 cut(s)	77
CviAII	CATG	2 cut(s)	181, 277
CviJI	RGCY	4 cut(s)	22, 104, 132, 265
CviKI_1	RGCY	4 cut(s)	22, 104, 132, 265
CviQI	GTAC	1 cut(s)	77
DpnI	GATC	1 cut(s)	258
DpnII	GATC	1 cut(s)	256
DraI	TTTAAA	1 cut(s)	213
EaeI	YGGCCR	1 cut(s)	130
Eam1104I	CTCTTC	2 cut(s)	116, 180
EarI	CTCTTC	2 cut(s)	116, 180
Eco31I	GGTCTC	1 cut(s)	346
Eco47I	GGWCC	1 cut(s)	409
Eco57I	CTGAAG	3 cut(s)	8, 97, 474
Eco88I	CYCGRG	1 cut(s)	51
FaeI	CATG	2 cut(s)	184, 280
FaiI	YATR	5 cut(s)	64, 182, 278, 369, 423
FatI	CATG	2 cut(s)	180, 276
FauI	CCCGC	3 cut(s)	59, 223, 286
Fnu4HI	GCNGC	2 cut(s)	73, 87
FokI	GGATG	1 cut(s)	384
Fsp4HI	GCNGC	2 cut(s)	73, 87
GluI	GCNGC	2 cut(s)	73, 87
HaeIII	GGCC	1 cut(s)	132
HapII	CCGG	1 cut(s)	357
Hin1II	CATG	2 cut(s)	184, 280
HindIII	AAGCTT	1 cut(s)	20
HinfI	GANTC	1 cut(s)	57
HpaII	CCGG	1 cut(s)	357
HphI	GGTGA	2 cut(s)	317, 386
Hpy188I	TCNGA	5 cut(s)	46, 286, 402, 418, 442
Hpy188III	TCNNGA	2 cut(s)	223, 260
HpyAV	CCTTC	4 cut(s)	116, 244, 338, 437
HpyCH4III	ACNGT	1 cut(s)	392
HpyCH4V	TGCA	2 cut(s)	89, 276
HpyF10VI	GCNNNNNNNGC	1 cut(s)	72
Hsp92II	CATG	2 cut(s)	184, 280
Kzo9I	GATC	1 cut(s)	256
LmnI	GCTCC	1 cut(s)	69
LpnPI	CCDG	3 cut(s)	212, 315, 370
Lsp1109I	GCAGC	2 cut(s)	73, 84
LweI	GCATC	2 cut(s)	37, 439
MaeIII	GTNAC	1 cut(s)	392
MalI	GATC	1 cut(s)	258
MboI	GATC	1 cut(s)	256
MboII	GAAGA	5 cut(s)	103, 104, 107, 197, 248
MhlI	GDGCHC	1 cut(s)	432
MlsI	TGGCCA	1 cut(s)	132
MluCI	AATT	1 cut(s)	340
MluNI	TGGCCA	1 cut(s)	132
MnlI	CCTC	3 cut(s)	47, 181, 230
Mox20I	TGGCCA	1 cut(s)	132
MscI	TGGCCA	1 cut(s)	132
MseI	TTAA	2 cut(s)	144, 212
Msp20I	TGGCCA	1 cut(s)	132
MspI	CCGG	1 cut(s)	357
MspR9I	CCNGG	1 cut(s)	357
MwoI	GCNNNNNNNGC	1 cut(s)	72
NciI	CCSGG	1 cut(s)	357
NdeII	GATC	1 cut(s)	256
NlaIII	CATG	2 cut(s)	184, 280
NmuCI	GTSAC	1 cut(s)	392
NspV	TTCGAA	1 cut(s)	331
PfeI	GAWTC	1 cut(s)	57
PkrI	GCNGC	2 cut(s)	74, 88
PspPI	GGNCC	1 cut(s)	409
PstI	CTGCAG	1 cut(s)	91
RsaI	GTAC	1 cut(s)	78
RsaNI	GTAC	1 cut(s)	77
SaqAI	TTAA	2 cut(s)	144, 212
SatI	GCNGC	2 cut(s)	73, 87
Sau3AI	GATC	1 cut(s)	256
Sau96I	GGNCC	1 cut(s)	409
ScrFI	CCNGG	1 cut(s)	357
SduI	GDGCHC	1 cut(s)	432
SetI	ASST	3 cut(s)	24, 267, 330
SfaNI	GCATC	2 cut(s)	37, 439
SfcI	CTRYAG	1 cut(s)	87
SfuI	TTCGAA	1 cut(s)	331
SinI	GGWCC	1 cut(s)	409
SmlI	CTYRAG	1 cut(s)	221
SmoI	CTYRAG	1 cut(s)	221
Sse9I	AATT	1 cut(s)	340
SsiI	CCGC	4 cut(s)	66, 230, 293, 374
StyD4I	CCNGG	1 cut(s)	355
TaaI	ACNGT	1 cut(s)	392
TaqI	TCGA	1 cut(s)	331
TasI	AATT	1 cut(s)	340
TfiI	GAWTC	1 cut(s)	57
Tru1I	TTAA	2 cut(s)	144, 212
Tru9I	TTAA	2 cut(s)	144, 212
TscAI	CASTG	2 cut(s)	170, 278
TseFI	GTSAC	1 cut(s)	392
TseI	GCWGC	2 cut(s)	72, 86
Tsp45I	GTSAC	1 cut(s)	392
TspDTI	ATGAA	1 cut(s)	293
TspRI	CASTG	2 cut(s)	170, 278
VpaK11BI	GGWCC	1 cut(s)	409

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