Basic Information

Type: gene

Biological Identity

Species

pyrus_communis

Chromosome

Chr3

Orthogroup ID

OG0028494

Physical Location & Seq

Genomic Coordinates Reverse (-)

16152453 .. 16157338

Gene Structure 4886 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

pycom03g14820.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1095 bp

ATGACAGTCTTCAGCACTACCTCAGCATCCCTCGATCGCGAGCTCCCGCCATCGCCTGAAATGAAAGATAAAGTGACGGCCATGGAGAAAATCGTAGGCCACAACTTCAAGAACAAGAGGCTTCTAGAGGAAGCTCTCACACACCCCTCCGTCACAAACTTCCCATCGTATGAGCGTTTAGCTGTGCTCGGTGACGCTGCCCTTGGCATGGCTATGACTAAGCACCTCTTTCTTGTTTACCCCGACATGAATCAAGGTGACTTCTCTAAGCTCCGGTCCACCAATGTTAGTACGATGAAGTTCGCACGCGCTGCTGTAAAACATGGGTTTGATCACTGCCTTCGTCACAATTCTCCTGCTCTCGAAATTCAGGTTGGGGAGTTTGCCAAAGCGGTTTCGAATGAAGAAGATGAGACGGATCTTTTATATGGTGGGACTATGCAACCCAATCATCCTCTTGCAGATATTGTGGAAGCAGTGGCAGCTGCCATATACATTGACTTGAACTATGATCTGGACAAACTATGGAAGACATTTAAGCATGTCTTGGAGCCTATGGTTACTCTCGAAGACTTGCTGGATCACCCTGTGTCAAATTTGTTTAAGTTTTGCCAAAAGCATGGAAAGCGCTTTGAGATCGAGAAGGCGAGAAATGATGATAAAAATATAAGTAATTGTGCTGTGTATGTTGATGGAAACTGCATTGCCTCGGCTTATGGAAAAAATATTTCAATTGCCAAGCGTCATGCTGCAAGAGAAGCCCTATCTAAGTTGTCCAAATTCGGCATAAGCTATGGGTCTTTTGAAGTTGTTGCTGAAAATGAACCTAAAAAGATTTTGAAGGAGCTTTGTGAGAAGAAGAGCATCGGTAAACCAACTTACAGAATTGAGAAAGAATTTGGTCCTGAGCATGAGAAGAGATTTGTATCATCAGTTGAAATTGAAACTTTAGATGGTGTGCTATATAAGAGAGGAGATGAAAAGCCAAGAAAACGAGATGCGGAGAATTCTGCGGCTTCCTTGATGATCATTATGATGAACACTAAAGAAGCAACTAAAATTAAGGGTGGCTATTTTCCAGAGGAAGCCTTTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0004521 GO:0004525 GO:0004540 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0006139 GO:0006396 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009892 GO:0009987 GO:0010033 GO:0010467 GO:0010468 GO:0010605 GO:0010608 GO:0010629 GO:0014070 GO:0016070 GO:0016246 GO:0016441 GO:0016442 GO:0016458 GO:0016787 GO:0016788 GO:0016891 GO:0016893 GO:0019222 GO:0030422 GO:0031047 GO:0031050 GO:0031332 GO:0032296 GO:0032991 GO:0034641 GO:0035194 GO:0040029 GO:0042221 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043331 GO:0044237 GO:0044238 GO:0044424 GO:0044464 GO:0046483 GO:0048519 GO:0050789 GO:0050896 GO:0051716 GO:0060255 GO:0065007 GO:0070887 GO:0070918 GO:0071310 GO:0071359 GO:0071407 GO:0071704 GO:0090304 GO:0090305 GO:0090501 GO:0090502 GO:0097159 GO:0140098 GO:1901360 GO:1901363 GO:1901698 GO:1901699 GO:1990904

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DND1_DSRM Ribonuclease_3 dsrm

Protein Analysis

365

Amino Acids

40.92

Weight (kDa)

6.65

Isoelectric Point (pI)

31.39

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Ribonucleas_3_3	PF14622	38 - 167	3.5e-11	Ribonuclease-III-like
Ribonuclease_3	PF00636	58 - 167	1e-17	Ribonuclease III domain
dsrm	PF00035	196 - 258	1.9e-06	Double-stranded RNA binding motif
DND1_DSRM	PF14709	275 - 343	3.8e-10	double strand RNA binding domain from DEAD END PROTEIN 1
dsrm	PF00035	276 - 343	9.1e-12	Double-stranded RNA binding motif

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: OG0028494)

Species	Orthologous Gene IDs
malus_domestica	MD03G1196100.v1.1
pyrus_communis	pycom03g14820

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	2 cut(s)	39, 309
AciI	CCGC	4 cut(s)	47, 392, 1001, 1013
AclWI	GGATC	2 cut(s)	426, 588
AcoI	YGGCCR	1 cut(s)	78
AcsI	RAATTY	5 cut(s)	366, 595, 779, 896, 1006
AdeI	CACNNNGTG	1 cut(s)	589
AfaI	GTAC	1 cut(s)	292
AfeI	AGCGCT	1 cut(s)	629
AfiI	CCNNNNNNNGG	1 cut(s)	208
AgsI	TTSAA	7 cut(s)	109, 505, 732, 806, 841, 938, 944
AjuI	GAANNNNNNNTTGG	2 cut(s)	357, 389
AluBI	AGCT	7 cut(s)	43, 134, 182, 271, 485, 792, 847
AluI	AGCT	7 cut(s)	43, 134, 182, 271, 485, 792, 847
Alw21I	GWGCWC	2 cut(s)	45, 189
Alw26I	GTCTC	1 cut(s)	407
AlwI	GGATC	2 cut(s)	426, 588
Aor51HI	AGCGCT	1 cut(s)	629
AoxI	GGCC	2 cut(s)	78, 97
ApeKI	GCWGC	5 cut(s)	197, 311, 482, 485, 749
ApoI	RAATTY	5 cut(s)	366, 595, 779, 896, 1006
AspLEI	GCGC	2 cut(s)	311, 630
AspS9I	GGNCC	2 cut(s)	276, 902
AsuHPI	GGTGA	3 cut(s)	203, 269, 575
AsuII	TTCGAA	1 cut(s)	398
AvaII	GGWCC	2 cut(s)	276, 902
BanII	GRGCYC	1 cut(s)	45
BbsI	GAAGAC	2 cut(s)	536, 576
Bbv12I	GWGCWC	2 cut(s)	45, 189
BbvCI	CCTCAGC	1 cut(s)	22
BbvI	GCAGC	5 cut(s)	184, 298, 472, 494, 736
BccI	CCATC	4 cut(s)	58, 172, 686, 947
BceAI	ACGGC	1 cut(s)	93
BclI	TGATCA	2 cut(s)	331, 1026
BcoDI	GTCTC	1 cut(s)	407
BfaI	CTAG	1 cut(s)	125
BfoI	RGCGCY	1 cut(s)	631
BisI	GCNGC	6 cut(s)	198, 312, 483, 486, 750, 1014
BlsI	GCNGC	6 cut(s)	199, 313, 484, 487, 751, 1015
Bme18I	GGWCC	2 cut(s)	276, 902
BmgT120I	GGNCC	2 cut(s)	276, 902
BmiI	GGNNCC	1 cut(s)	552
BmsI	GCATC	3 cut(s)	35, 873, 988
BpiI	GAAGAC	2 cut(s)	536, 576
Bpu10I	CCTNAGC	2 cut(s)	22, 906
Bpu14I	TTCGAA	1 cut(s)	398
BsaBI	GATNNNNATC	1 cut(s)	925
BsaJI	CCNNGG	3 cut(s)	81, 202, 708
BsaWI	WCCGGW	1 cut(s)	273
Bsc4I	CCNNNNNNNGG	1 cut(s)	208
Bse3DI	GCAATG	1 cut(s)	702
Bse8I	GATNNNNATC	1 cut(s)	925
BseDI	CCNNGG	3 cut(s)	81, 202, 708
BseGI	GGATG	2 cut(s)	26, 451
BseJI	GATNNNNATC	1 cut(s)	925
BseLI	CCNNNNNNNGG	1 cut(s)	208
BseMI	GCAATG	1 cut(s)	702
BseMII	CTCAG	2 cut(s)	36, 897
BseRI	GAGGAG	1 cut(s)	987
BseXI	GCAGC	5 cut(s)	184, 298, 472, 494, 736
Bsh1236I	CGCG	2 cut(s)	39, 309
Bsh1285I	CGRYCG	1 cut(s)	37
BshFI	GGCC	2 cut(s)	80, 99
BsiEI	CGRYCG	1 cut(s)	37
BsiHKAI	GWGCWC	2 cut(s)	45, 189
BsiSI	CCGG	1 cut(s)	274
BslFI	GGGAC	1 cut(s)	448
BslI	CCNNNNNNNGG	1 cut(s)	208
BsmAI	GTCTC	1 cut(s)	407
BsmBI	CGTCTC	1 cut(s)	407
BsmFI	GGGAC	1 cut(s)	448
BsnI	GGCC	2 cut(s)	80, 99
Bsp119I	TTCGAA	1 cut(s)	398
Bsp1286I	GDGCHC	2 cut(s)	45, 189
Bsp143I	GATC	7 cut(s)	34, 331, 418, 511, 580, 636, 1026
Bsp19I	CCATGG	1 cut(s)	81
Bsp68I	TCGCGA	1 cut(s)	39
BspACI	CCGC	4 cut(s)	47, 392, 1001, 1013
BspANI	GGCC	2 cut(s)	80, 99
BspCNI	CTCAG	2 cut(s)	35, 898
BspFNI	CGCG	2 cut(s)	39, 309
BspLI	GGNNCC	1 cut(s)	552
BspPI	GGATC	2 cut(s)	426, 588
BspQI	GCTCTTC	1 cut(s)	854
BspT104I	TTCGAA	1 cut(s)	398
BsrDI	GCAATG	1 cut(s)	702
BssECI	CCNNGG	3 cut(s)	81, 202, 708
BssMI	GATC	7 cut(s)	34, 331, 418, 511, 580, 636, 1026
BssT1I	CCWWGG	2 cut(s)	81, 202
Bst4CI	ACNGT	1 cut(s)	7
Bst6I	CTCTTC	2 cut(s)	854, 911
BstAPI	GCANNNNNTGC	1 cut(s)	311
BstBI	TTCGAA	1 cut(s)	398
BstC8I	GCNNGC	2 cut(s)	41, 307
BstDEI	CTNAG	5 cut(s)	22, 219, 267, 768, 906
BstDSI	CCRYGG	1 cut(s)	81
BstF5I	GGATG	2 cut(s)	26, 451
BstFNI	CGCG	2 cut(s)	39, 309
BstH2I	RGCGCY	1 cut(s)	631
BstHHI	GCGC	2 cut(s)	311, 630
BstKTI	GATC	7 cut(s)	37, 334, 421, 514, 583, 639, 1029
BstMAI	GTCTC	1 cut(s)	407
BstMBI	GATC	7 cut(s)	34, 331, 418, 511, 580, 636, 1026
BstMCI	CGRYCG	1 cut(s)	37
BstMWI	GCNNNNNNNGC	4 cut(s)	311, 482, 625, 758
BstNSI	RCATGY	1 cut(s)	545
BstUI	CGCG	2 cut(s)	39, 309
BstV1I	GCAGC	5 cut(s)	184, 298, 472, 494, 736
BstV2I	GAAGAC	2 cut(s)	536, 576
BstX2I	RGATCY	1 cut(s)	418
BstXI	CCANNNNNNTGG	1 cut(s)	620
BstYI	RGATCY	1 cut(s)	418
BsuRI	GGCC	2 cut(s)	80, 99
BtgI	CCRYGG	1 cut(s)	81
BtgZI	GCGATG	1 cut(s)	36
BtsCI	GGATG	2 cut(s)	26, 451
BtsI	GCAGTG	2 cut(s)	334, 483
BtsIMutI	CAGTG	2 cut(s)	334, 483
BtuMI	TCGCGA	1 cut(s)	39
Cac8I	GCNNGC	2 cut(s)	41, 307
CfoI	GCGC	2 cut(s)	311, 630
Cfr13I	GGNCC	2 cut(s)	276, 902
CseI	GACGC	2 cut(s)	203, 731
Csp6I	GTAC	1 cut(s)	291
CviAII	CATG	8 cut(s)	82, 208, 247, 323, 542, 620, 746, 911
CviQI	GTAC	1 cut(s)	291
DdeI	CTNAG	5 cut(s)	22, 219, 267, 768, 906
DpnI	GATC	7 cut(s)	36, 333, 420, 513, 582, 638, 1028
DpnII	GATC	7 cut(s)	34, 331, 418, 511, 580, 636, 1026
DraIII	CACNNNGTG	1 cut(s)	589
EaeI	YGGCCR	1 cut(s)	78
Eam1104I	CTCTTC	2 cut(s)	854, 911
EarI	CTCTTC	2 cut(s)	854, 911
Ecl136II	GAGCTC	1 cut(s)	43
Eco130I	CCWWGG	2 cut(s)	81, 202
Eco24I	GRGCYC	1 cut(s)	45
Eco47I	GGWCC	2 cut(s)	276, 902
Eco47III	AGCGCT	1 cut(s)	629
Eco53kI	GAGCTC	1 cut(s)	43
EcoICRI	GAGCTC	1 cut(s)	43
EcoRI	GAATTC	1 cut(s)	1006
EcoT14I	CCWWGG	2 cut(s)	81, 202
EcoT38I	GRGCYC	1 cut(s)	45
ErhI	CCWWGG	2 cut(s)	81, 202
Esp3I	CGTCTC	1 cut(s)	407
FaeI	CATG	8 cut(s)	85, 211, 250, 326, 545, 623, 749, 914
FalI	AAGNNNNNCTT	4 cut(s)	212, 244, 530, 562
FaqI	GGGAC	1 cut(s)	448
FatI	CATG	8 cut(s)	81, 207, 246, 322, 541, 619, 745, 910
FauI	CCCGC	1 cut(s)	54
FbaI	TGATCA	2 cut(s)	331, 1026
Fnu4HI	GCNGC	6 cut(s)	198, 312, 483, 486, 750, 1014
FokI	GGATG	2 cut(s)	13, 438
FriOI	GRGCYC	1 cut(s)	45
Fsp4HI	GCNGC	6 cut(s)	198, 312, 483, 486, 750, 1014
FspBI	CTAG	1 cut(s)	125
GlaI	GCGC	2 cut(s)	310, 629
GluI	GCNGC	6 cut(s)	198, 312, 483, 486, 750, 1014
HaeII	RGCGCY	1 cut(s)	631
HaeIII	GGCC	2 cut(s)	80, 99
HapII	CCGG	1 cut(s)	274
HgaI	GACGC	2 cut(s)	203, 731
HhaI	GCGC	2 cut(s)	311, 630
Hin1II	CATG	8 cut(s)	85, 211, 250, 326, 545, 623, 749, 914
Hin6I	GCGC	2 cut(s)	309, 628
HinP1I	GCGC	2 cut(s)	309, 628
HinfI	GANTC	1 cut(s)	250
HpaII	CCGG	1 cut(s)	274
HphI	GGTGA	3 cut(s)	203, 269, 575
Hpy166II	GTNNAC	3 cut(s)	238, 279, 872
Hpy188III	TCNNGA	9 cut(s)	38, 109, 125, 362, 515, 566, 640, 905, 1079
Hpy8I	GTNNAC	3 cut(s)	238, 279, 872
HpyAV	CCTTC	3 cut(s)	350, 637, 835
HpyCH4III	ACNGT	1 cut(s)	7
HpyCH4V	TGCA	4 cut(s)	442, 461, 702, 752
HpyF10VI	GCNNNNNNNGC	4 cut(s)	311, 482, 625, 758
HpyF3I	CTNAG	5 cut(s)	22, 219, 267, 768, 906
Hsp92II	CATG	8 cut(s)	85, 211, 250, 326, 545, 623, 749, 914
HspAI	GCGC	2 cut(s)	309, 628
Ksp22I	TGATCA	2 cut(s)	331, 1026
Kzo9I	GATC	7 cut(s)	34, 331, 418, 511, 580, 636, 1026
LguI	GCTCTTC	1 cut(s)	854
LmnI	GCTCC	4 cut(s)	48, 276, 550, 844
LpnPI	CCDG	8 cut(s)	69, 287, 356, 369, 500, 563, 600, 918
Lsp1109I	GCAGC	5 cut(s)	184, 298, 472, 494, 736
LweI	GCATC	3 cut(s)	35, 873, 988
MaeI	CTAG	1 cut(s)	125
MaeIII	GTNAC	6 cut(s)	73, 151, 191, 257, 344, 559
MalI	GATC	7 cut(s)	36, 333, 420, 513, 582, 638, 1028
MboI	GATC	7 cut(s)	34, 331, 418, 511, 580, 636, 1026
MboII	GAAGA	7 cut(s)	416, 419, 541, 581, 868, 871, 928
MfeI	CAATTG	1 cut(s)	732
MflI	RGATCY	1 cut(s)	418
MhlI	GDGCHC	2 cut(s)	45, 189
MseI	TTAA	4 cut(s)	537, 603, 1062, 1093
MslI	CAYNNNNRTG	2 cut(s)	212, 1034
MspA1I	CMGCKG	1 cut(s)	485
MspI	CCGG	1 cut(s)	274
MunI	CAATTG	1 cut(s)	732
MvnI	CGCG	2 cut(s)	39, 309
MwoI	GCNNNNNNNGC	4 cut(s)	311, 482, 625, 758
NcoI	CCATGG	1 cut(s)	81
NdeII	GATC	7 cut(s)	34, 331, 418, 511, 580, 636, 1026
NlaIII	CATG	8 cut(s)	85, 211, 250, 326, 545, 623, 749, 914
NlaIV	GGNNCC	1 cut(s)	552
NmeAIII	GCCGAG	1 cut(s)	689
NmuCI	GTSAC	5 cut(s)	73, 151, 191, 257, 344
NruI	TCGCGA	1 cut(s)	39
NspI	RCATGY	1 cut(s)	545
NspV	TTCGAA	1 cut(s)	398
PciSI	GCTCTTC	1 cut(s)	854
PfeI	GAWTC	1 cut(s)	250
PkrI	GCNGC	6 cut(s)	199, 313, 484, 487, 751, 1015
Ple19I	CGATCG	1 cut(s)	37
Psp124BI	GAGCTC	1 cut(s)	45
PspN4I	GGNNCC	1 cut(s)	552
PspPI	GGNCC	2 cut(s)	276, 902
PsuI	RGATCY	1 cut(s)	418
PvuI	CGATCG	1 cut(s)	37
PvuII	CAGCTG	1 cut(s)	485
RruI	TCGCGA	1 cut(s)	39
RsaI	GTAC	1 cut(s)	292
RsaNI	GTAC	1 cut(s)	291
RseI	CAYNNNNRTG	2 cut(s)	212, 1034
SacI	GAGCTC	1 cut(s)	45
SapI	GCTCTTC	1 cut(s)	854
SaqAI	TTAA	4 cut(s)	537, 603, 1062, 1093
SatI	GCNGC	6 cut(s)	198, 312, 483, 486, 750, 1014
Sau3AI	GATC	7 cut(s)	34, 331, 418, 511, 580, 636, 1026
Sau96I	GGNCC	2 cut(s)	276, 902
SduI	GDGCHC	2 cut(s)	45, 189
SfaNI	GCATC	3 cut(s)	35, 873, 988
SfuI	TTCGAA	1 cut(s)	398
SinI	GGWCC	2 cut(s)	276, 902
SmiMI	CAYNNNNRTG	2 cut(s)	212, 1034
SsiI	CCGC	4 cut(s)	47, 392, 1001, 1013
SspI	AATATT	1 cut(s)	727
SspMI	CTAG	1 cut(s)	125
SstI	GAGCTC	1 cut(s)	45
StyI	CCWWGG	2 cut(s)	81, 202
TaaI	ACNGT	1 cut(s)	7
TaqI	TCGA	5 cut(s)	33, 363, 398, 567, 639
TauI	GCSGC	1 cut(s)	1016
TfiI	GAWTC	1 cut(s)	250
Tru1I	TTAA	4 cut(s)	537, 603, 1062, 1093
Tru9I	TTAA	4 cut(s)	537, 603, 1062, 1093
TscAI	CASTG	2 cut(s)	341, 483
TseFI	GTSAC	5 cut(s)	73, 151, 191, 257, 344
TseI	GCWGC	5 cut(s)	197, 311, 482, 485, 749
Tsp45I	GTSAC	5 cut(s)	73, 151, 191, 257, 344
TspDTI	ATGAA	7 cut(s)	77, 263, 311, 417, 837, 993, 1052
TspGWI	ACGGA	2 cut(s)	139, 431
TspRI	CASTG	2 cut(s)	341, 483
VpaK11BI	GGWCC	2 cut(s)	276, 902
XapI	RAATTY	5 cut(s)	366, 595, 779, 896, 1006
XbaI	TCTAGA	1 cut(s)	124
XceI	RCATGY	1 cut(s)	545
XspI	CTAG	1 cut(s)	125

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