Basic Information

Type: gene

Biological Identity

Species

pyrus_communis

Chromosome

Chr5

Orthogroup ID

OG0002529

Physical Location & Seq

Genomic Coordinates Reverse (-)

31464114 .. 31468609

Gene Structure 4496 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

pycom05g31940.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1146 bp

ATGGAAGGTGGTTCCAATGGCACCTGTAGTATGATGGCTTTTGGAGAAAGCAGCAGTAATGGAGGAGGAATGATGATGATGCCTCTAATGACTTCATCACATCATGCTGATCACTCTCACCATCATCATCATCAACATATGAACCCTAATCCTTATGCAGATGCACACAATACTAGTACGACTCATCAGCTTCACCAGCTTCCCCAGTTGCCTCCGTCCAACAACCATCACGACCGGCATAACACAAGCGGCGGCTCCTCCTTCATTCTCCACAACCCAGCTGCCGCCTCCTATTTCATGGACAACAACAACAATAATGAAGGTGTTGGCGGCAGCTCTTTTTCTTCTTCATCTTCAACTGTCAAGGCTAAGATCATGGCCCATCCTCACTATCACCGCCTCTTGGCCTCTTATATCAACTGTCAAAAGGTTGGAGCGCCGCCTGAAGTGGTGTCGAGACTGGAAGAAGCGTGCGCATCGGCGGCGACAATAGGTCAAATGGTGAGTAGTAGTAGTGGATCAGGATCTCTCGGTGAAGATCCAGCTTTGGATCAGTTCATGGAGGCCTACTGCGAGATGCTCACCAAGTATGAGCAAGAACTCTCTAAACCCTTCAAGGAAGCCATGATCTTCCTCCAAAGAATCGAGTCCCAATTCAAAGCCCTTACTCTTTCTTCTTCTTCCGATTCTGCAGGTTATGGCGAGGGAATTGATAGGAATAACGGATCATCTGAAGATGAGGTTGATGTTAACAACTTCATAGATCCGCAAGCGGAAGACAGGGAGCTTAAAGGTCAGCTATTGCGCAAGTACAGTGGATATTTGGGTAGTTTGAAGCAGGAGTTCATGAAGAAGAGGAAGAAAGGGAAGCTGCCTAAAGAAGCCAGGCAACAGCTGCTTGATTGGTGGAGCCGTCATTACAAATGGCCTTATCCATCGGAGTCACAGAAGCTAGCTCTGGCAGAATCAACGGGGCTGGACCAAAAGCAGATAAACAACTGGTTCATTAACCAAAGGAAGCGGCATTGGAAGCCGACGGAGGATATGCAGTTCGTGGTGATGGATGCTAGCCACCCCGGTCACTACTACATGGACAGTGTCATGGGAAATCCATTTCCCATGGATATCTCTCCCACATTGCTCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0003006 GO:0003674 GO:0003676 GO:0003700 GO:0003723 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0005856 GO:0005911 GO:0006355 GO:0006725 GO:0006807 GO:0006810 GO:0007275 GO:0008150 GO:0008152 GO:0009058 GO:0009308 GO:0009506 GO:0009690 GO:0009691 GO:0009791 GO:0009889 GO:0009908 GO:0009934 GO:0009987 GO:0010468 GO:0010496 GO:0010497 GO:0010556 GO:0010817 GO:0015630 GO:0019219 GO:0019222 GO:0019827 GO:0022414 GO:0022603 GO:0030054 GO:0031323 GO:0031326 GO:0032501 GO:0032502 GO:0034754 GO:0042445 GO:0042446 GO:0042802 GO:0042803 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0044237 GO:0044249 GO:0044424 GO:0044464 GO:0046483 GO:0046983 GO:0048367 GO:0048437 GO:0048438 GO:0048440 GO:0048467 GO:0048509 GO:0048608 GO:0048731 GO:0048827 GO:0048856 GO:0050789 GO:0050793 GO:0050794 GO:0051171 GO:0051179 GO:0051234 GO:0051252 GO:0055044 GO:0060255 GO:0061458 GO:0065007 GO:0065008 GO:0071704 GO:0080090 GO:0090567 GO:0097159 GO:0098727 GO:0099402 GO:0140110 GO:1901363 GO:1901564 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

ELK Homeobox_KN KNOX1 KNOX2

Protein Analysis

382

Amino Acids

42.51

Weight (kDa)

6.28

Isoelectric Point (pI)

46.86

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
KNOX1	PF03790	121 - 159	5.3e-21	KNOX1 domain
KNOX2	PF03791	177 - 223	6.5e-22	KNOX2 domain
ELK	PF03789	262 - 283	4.5e-11	ELK domain
Homeobox_KN	PF05920	302 - 341	1.1e-18	Homeobox KN domain
Homeodomain	PF00046	309 - 342	9.1e-07	Homeodomain

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: OG0002529)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G62360
fragaria_vesca	FvH4_3g01400 FvH4_3g01400 FvH4_3g01400 FvH4_3g01400 FvH4_6g42570 FvH4_6g42570
malus_domestica	MD05G1352500.v1.1 MD09G1112500.v1.1 MD10G1276200.v1.1 MD10G1326500.v1.1 MD17G1102600.v1.1
prunus_persica	Prupe.3G212100_v2.0.a1 Prupe.4G015200_v2.0.a1 Prupe.4G015200_v2.0.a1
pyrus_communis	pycom05g31940 pycom09g03690 pycom10g27650 pycom17g09700
rosa_chinensis	RchiOBHm_Chr2g0158421 RchiOBHm_Chr5g0002121
rosa_laevigata	RLG00000021086 RLG00000030997
rosa_multiflora	Rmu_sc0004855.1_g000009 Rmu_ssc0000001.1_g000013
rosa_roxburghii	Rroxscaffold_1G00073790 Rroxscaffold_2G00091400
rosa_rugosa	Rorug02G0468500 Rorug02G0468600 Rorug04G0394500 Rorug04G0394500
rosa_samantha	Rh2AG534700 Rh2BG548100 Rh2CG518500 Rh2DG557700 Rh5AG016200 Rh5BG019600 Rh5CG017500 Rh5DG017700
rosa_wichuraiana	Rw2G044280 Rw5G001580

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	2 cut(s)	475, 806
Acc36I	ACCTGC	1 cut(s)	683
AccB1I	GGYRCC	1 cut(s)	20
AclWI	GGATC	6 cut(s)	526, 532, 533, 558, 733, 758
AcuI	CTGAAG	2 cut(s)	465, 753
AfaI	GTAC	2 cut(s)	178, 812
AfiI	CCNNNNNNNGG	1 cut(s)	403
AgsI	TTSAA	4 cut(s)	357, 616, 658, 835
AhdI	GACNNNNNGTC	1 cut(s)	492
AhlI	ACTAGT	1 cut(s)	173
AjnI	CCWGG	1 cut(s)	884
AloI	GAACNNNNNNTCC	2 cut(s)	1034, 1066
Alw26I	GTCTC	1 cut(s)	451
AlwI	GGATC	6 cut(s)	526, 532, 533, 558, 733, 758
AoxI	GGCC	4 cut(s)	378, 405, 564, 926
ApeKI	GCWGC	5 cut(s)	51, 281, 333, 871, 895
AspLEI	GCGC	3 cut(s)	439, 476, 807
AspS9I	GGNCC	2 cut(s)	379, 979
AsuC2I	CCSGG	1 cut(s)	1077
AsuHPI	GGTGA	7 cut(s)	110, 185, 386, 514, 545, 574, 1069
AsuNHI	GCTAGC	2 cut(s)	952, 1067
AvaII	GGWCC	1 cut(s)	979
BanI	GGYRCC	1 cut(s)	20
BbsI	GAAGAC	1 cut(s)	783
BbvI	GCAGC	5 cut(s)	63, 268, 345, 858, 882
BccI	CCATC	6 cut(s)	28, 129, 234, 390, 943, 1054
BceAI	ACGGC	1 cut(s)	897
BciT130I	CCWGG	1 cut(s)	886
BclI	TGATCA	1 cut(s)	109
BcnI	CCSGG	1 cut(s)	1077
BcoDI	GTCTC	1 cut(s)	451
BcuI	ACTAGT	1 cut(s)	173
BfaI	CTAG	3 cut(s)	174, 953, 1068
BfmI	CTRYAG	2 cut(s)	25, 690
BfoI	RGCGCY	1 cut(s)	440
BfuAI	ACCTGC	1 cut(s)	683
Bme1390I	CCNGG	2 cut(s)	886, 1077
Bme18I	GGWCC	1 cut(s)	979
BmeRI	GACNNNNNGTC	1 cut(s)	492
BmgT120I	GGNCC	2 cut(s)	379, 979
BmiI	GGNNCC	4 cut(s)	13, 22, 256, 911
BmrFI	CCNGG	2 cut(s)	886, 1077
BmrI	ACTGGG	1 cut(s)	199
BmsI	GCATC	5 cut(s)	69, 151, 485, 567, 1054
BmtI	GCTAGC	2 cut(s)	956, 1071
BmuI	ACTGGG	1 cut(s)	199
BpiI	GAAGAC	1 cut(s)	783
BpuMI	CCSGG	1 cut(s)	1077
BsaBI	GATNNNNATC	1 cut(s)	523
BsaJI	CCNNGG	2 cut(s)	1075, 1119
Bsc4I	CCNNNNNNNGG	1 cut(s)	403
Bse118I	RCCGGY	1 cut(s)	234
Bse1I	ACTGG	3 cut(s)	205, 465, 1004
Bse3DI	GCAATG	1 cut(s)	1136
Bse8I	GATNNNNATC	1 cut(s)	523
BseBI	CCWGG	1 cut(s)	886
BseDI	CCNNGG	2 cut(s)	1075, 1119
BseGI	GGATG	2 cut(s)	382, 1069
BseJI	GATNNNNATC	1 cut(s)	523
BseLI	CCNNNNNNNGG	1 cut(s)	403
BseMI	GCAATG	1 cut(s)	1136
BseNI	ACTGG	3 cut(s)	205, 465, 1004
BseRI	GAGGAG	2 cut(s)	78, 247
BseXI	GCAGC	5 cut(s)	63, 268, 345, 858, 882
BseYI	CCCAGC	1 cut(s)	277
Bsh1285I	CGRYCG	1 cut(s)	235
BshFI	GGCC	4 cut(s)	380, 407, 566, 928
BshNI	GGYRCC	1 cut(s)	20
BsiEI	CGRYCG	1 cut(s)	235
BsiSI	CCGG	2 cut(s)	235, 1077
BslFI	GGGAC	1 cut(s)	634
BslI	CCNNNNNNNGG	1 cut(s)	403
BsmAI	GTCTC	1 cut(s)	451
BsmFI	GGGAC	1 cut(s)	634
BsnI	GGCC	4 cut(s)	380, 407, 566, 928
Bsp143I	GATC	9 cut(s)	109, 372, 518, 524, 538, 550, 627, 725, 763
Bsp19I	CCATGG	1 cut(s)	1119
BspANI	GGCC	4 cut(s)	380, 407, 566, 928
BspHI	TCATGA	1 cut(s)	846
BspLI	GGNNCC	4 cut(s)	13, 22, 256, 911
BspMAI	CTGCAG	1 cut(s)	694
BspMI	ACCTGC	1 cut(s)	683
BspOI	GCTAGC	2 cut(s)	956, 1071
BspPI	GGATC	6 cut(s)	526, 532, 533, 558, 733, 758
BspT107I	GGYRCC	1 cut(s)	20
BsrDI	GCAATG	1 cut(s)	1136
BsrFI	RCCGGY	1 cut(s)	234
BsrI	ACTGG	3 cut(s)	205, 465, 1004
BssAI	RCCGGY	1 cut(s)	234
BssECI	CCNNGG	2 cut(s)	1075, 1119
BssMI	GATC	9 cut(s)	109, 372, 518, 524, 538, 550, 627, 725, 763
BssT1I	CCWWGG	1 cut(s)	1119
Bst2UI	CCWGG	1 cut(s)	886
Bst4CI	ACNGT	4 cut(s)	361, 422, 815, 1097
Bst6I	CTCTTC	1 cut(s)	848
BstAPI	GCANNNNNTGC	1 cut(s)	895
BstC8I	GCNNGC	4 cut(s)	472, 771, 954, 1069
BstDEI	CTNAG	1 cut(s)	369
BstDSI	CCRYGG	1 cut(s)	1119
BstF5I	GGATG	2 cut(s)	382, 1069
BstH2I	RGCGCY	1 cut(s)	440
BstHHI	GCGC	3 cut(s)	439, 476, 807
BstKTI	GATC	9 cut(s)	112, 375, 521, 527, 541, 553, 630, 728, 766
BstMAI	GTCTC	1 cut(s)	451
BstMBI	GATC	9 cut(s)	109, 372, 518, 524, 538, 550, 627, 725, 763
BstMCI	CGRYCG	1 cut(s)	235
BstMWI	GCNNNNNNNGC	4 cut(s)	196, 482, 895, 1030
BstNI	CCWGG	1 cut(s)	886
BstSCI	CCNGG	2 cut(s)	884, 1075
BstSFI	CTRYAG	2 cut(s)	25, 690
BstV1I	GCAGC	5 cut(s)	63, 268, 345, 858, 882
BstV2I	GAAGAC	1 cut(s)	783
BstX2I	RGATCY	3 cut(s)	524, 538, 763
BstYI	RGATCY	3 cut(s)	524, 538, 763
BsuRI	GGCC	4 cut(s)	380, 407, 566, 928
BtgI	CCRYGG	1 cut(s)	1119
BtsCI	GGATG	2 cut(s)	382, 1069
BtsIMutI	CAGTG	2 cut(s)	820, 1102
BveI	ACCTGC	1 cut(s)	683
Cac8I	GCNNGC	4 cut(s)	472, 771, 954, 1069
CciI	TCATGA	1 cut(s)	846
CfoI	GCGC	3 cut(s)	439, 476, 807
Cfr10I	RCCGGY	1 cut(s)	234
Cfr13I	GGNCC	2 cut(s)	379, 979
Csp6I	GTAC	2 cut(s)	177, 811
CspCI	CAANNNNNGTGG	2 cut(s)	796, 831
CviAII	CATG	9 cut(s)	104, 298, 376, 559, 625, 847, 1090, 1102, 1120
CviQI	GTAC	2 cut(s)	177, 811
DdeI	CTNAG	1 cut(s)	369
DpnI	GATC	9 cut(s)	111, 374, 520, 526, 540, 552, 629, 727, 765
DpnII	GATC	9 cut(s)	109, 372, 518, 524, 538, 550, 627, 725, 763
DriI	GACNNNNNGTC	1 cut(s)	492
Eam1104I	CTCTTC	1 cut(s)	848
Eam1105I	GACNNNNNGTC	1 cut(s)	492
EarI	CTCTTC	1 cut(s)	848
Eco130I	CCWWGG	1 cut(s)	1119
Eco147I	AGGCCT	1 cut(s)	566
Eco32I	GATATC	1 cut(s)	1126
Eco47I	GGWCC	1 cut(s)	979
Eco57I	CTGAAG	2 cut(s)	465, 753
EcoRII	CCWGG	1 cut(s)	884
EcoRV	GATATC	1 cut(s)	1126
EcoT14I	CCWWGG	1 cut(s)	1119
ErhI	CCWWGG	1 cut(s)	1119
FaeI	CATG	9 cut(s)	107, 301, 379, 562, 628, 850, 1093, 1105, 1123
FaqI	GGGAC	1 cut(s)	634
FatI	CATG	9 cut(s)	103, 297, 375, 558, 624, 846, 1089, 1101, 1119
FauNDI	CATATG	1 cut(s)	138
FbaI	TGATCA	1 cut(s)	109
FokI	GGATG	2 cut(s)	369, 1076
FspAI	RTGCGCAY	1 cut(s)	475
FspBI	CTAG	3 cut(s)	174, 953, 1068
FspI	TGCGCA	2 cut(s)	475, 806
GlaI	GCGC	3 cut(s)	438, 475, 806
GsaI	CCCAGC	1 cut(s)	281
HaeII	RGCGCY	1 cut(s)	440
HaeIII	GGCC	4 cut(s)	380, 407, 566, 928
HapII	CCGG	2 cut(s)	235, 1077
HhaI	GCGC	3 cut(s)	439, 476, 807
Hin1II	CATG	9 cut(s)	107, 301, 379, 562, 628, 850, 1093, 1105, 1123
Hin6I	GCGC	3 cut(s)	437, 474, 805
HinP1I	GCGC	3 cut(s)	437, 474, 805
HincII	GTYRAC	1 cut(s)	751
HindII	GTYRAC	1 cut(s)	751
HinfI	GANTC	6 cut(s)	181, 642, 647, 686, 941, 965
HpaI	GTTAAC	1 cut(s)	751
HpaII	CCGG	2 cut(s)	235, 1077
HphI	GGTGA	7 cut(s)	110, 185, 386, 514, 545, 574, 1069
Hpy166II	GTNNAC	1 cut(s)	751
Hpy188I	TCNGA	4 cut(s)	685, 733, 940, 1145
Hpy188III	TCNNGA	4 cut(s)	230, 456, 522, 847
Hpy8I	GTNNAC	1 cut(s)	751
Hpy99I	CGWCG	1 cut(s)	1039
HpyAV	CCTTC	3 cut(s)	271, 314, 622
HpyCH4III	ACNGT	4 cut(s)	361, 422, 815, 1097
HpyCH4V	TGCA	4 cut(s)	158, 164, 692, 1048
HpyF10VI	GCNNNNNNNGC	4 cut(s)	196, 482, 895, 1030
HpyF3I	CTNAG	1 cut(s)	369
Hsp92II	CATG	9 cut(s)	107, 301, 379, 562, 628, 850, 1093, 1105, 1123
HspAI	GCGC	3 cut(s)	437, 474, 805
Ksp22I	TGATCA	1 cut(s)	109
KspAI	GTTAAC	1 cut(s)	751
Kzo9I	GATC	9 cut(s)	109, 372, 518, 524, 538, 550, 627, 725, 763
LmnI	GCTCC	4 cut(s)	260, 434, 784, 909
Lsp1109I	GCAGC	5 cut(s)	63, 268, 345, 858, 882
LweI	GCATC	5 cut(s)	69, 151, 485, 567, 1054
MaeI	CTAG	3 cut(s)	174, 953, 1068
MaeIII	GTNAC	2 cut(s)	942, 1079
MalI	GATC	9 cut(s)	111, 374, 520, 526, 540, 552, 629, 727, 765
MboI	GATC	9 cut(s)	109, 372, 518, 524, 538, 550, 627, 725, 763
MflI	RGATCY	3 cut(s)	524, 538, 763
MluCI	AATT	2 cut(s)	653, 708
MlyI	GAGTC	3 cut(s)	175, 656, 950
MmeI	TCCRAC	2 cut(s)	243, 412
MseI	TTAA	3 cut(s)	750, 789, 1008
MspA1I	CMGCKG	2 cut(s)	281, 895
MspI	CCGG	2 cut(s)	235, 1077
MspR9I	CCNGG	2 cut(s)	886, 1077
MvaI	CCWGG	1 cut(s)	886
MwoI	GCNNNNNNNGC	4 cut(s)	196, 482, 895, 1030
NciI	CCSGG	1 cut(s)	1077
NcoI	CCATGG	1 cut(s)	1119
NdeI	CATATG	1 cut(s)	138
NdeII	GATC	9 cut(s)	109, 372, 518, 524, 538, 550, 627, 725, 763
NheI	GCTAGC	2 cut(s)	952, 1067
NlaIII	CATG	9 cut(s)	107, 301, 379, 562, 628, 850, 1093, 1105, 1123
NlaIV	GGNNCC	4 cut(s)	13, 22, 256, 911
NmuCI	GTSAC	2 cut(s)	942, 1079
NsbI	TGCGCA	2 cut(s)	475, 806
PagI	TCATGA	1 cut(s)	846
PceI	AGGCCT	1 cut(s)	566
PfeI	GAWTC	3 cut(s)	642, 686, 965
PflFI	GACNNNGTC	1 cut(s)	1097
PleI	GAGTC	3 cut(s)	175, 655, 949
PpsI	GAGTC	3 cut(s)	175, 655, 949
Psp6I	CCWGG	1 cut(s)	884
PspFI	CCCAGC	1 cut(s)	277
PspGI	CCWGG	1 cut(s)	884
PspN4I	GGNNCC	4 cut(s)	13, 22, 256, 911
PspPI	GGNCC	2 cut(s)	379, 979
PstI	CTGCAG	1 cut(s)	694
PsuI	RGATCY	3 cut(s)	524, 538, 763
PsyI	GACNNNGTC	1 cut(s)	1097
PvuII	CAGCTG	2 cut(s)	281, 895
RsaI	GTAC	2 cut(s)	178, 812
RsaNI	GTAC	2 cut(s)	177, 811
SaqAI	TTAA	3 cut(s)	750, 789, 1008
Sau3AI	GATC	9 cut(s)	109, 372, 518, 524, 538, 550, 627, 725, 763
Sau96I	GGNCC	2 cut(s)	379, 979
SchI	GAGTC	3 cut(s)	175, 656, 950
ScrFI	CCNGG	2 cut(s)	886, 1077
SfaNI	GCATC	5 cut(s)	69, 151, 485, 567, 1054
SfcI	CTRYAG	2 cut(s)	25, 690
SinI	GGWCC	1 cut(s)	979
SpeI	ACTAGT	1 cut(s)	173
Sse9I	AATT	2 cut(s)	653, 708
SseBI	AGGCCT	1 cut(s)	566
SspMI	CTAG	3 cut(s)	174, 953, 1068
StuI	AGGCCT	1 cut(s)	566
StyD4I	CCNGG	2 cut(s)	884, 1075
StyI	CCWWGG	1 cut(s)	1119
TaaI	ACNGT	4 cut(s)	361, 422, 815, 1097
TaqI	TCGA	2 cut(s)	455, 645
TasI	AATT	2 cut(s)	653, 708
TatI	WGTACW	1 cut(s)	810
TauI	GCSGC	7 cut(s)	252, 255, 287, 333, 442, 485, 1024
TfiI	GAWTC	3 cut(s)	642, 686, 965
Tru1I	TTAA	3 cut(s)	750, 789, 1008
Tru9I	TTAA	3 cut(s)	750, 789, 1008
TscAI	CASTG	2 cut(s)	820, 1102
TseFI	GTSAC	2 cut(s)	942, 1079
TseI	GCWGC	5 cut(s)	51, 281, 333, 871, 895
Tsp45I	GTSAC	2 cut(s)	942, 1079
TspGWI	ACGGA	3 cut(s)	204, 738, 1052
TspRI	CASTG	2 cut(s)	820, 1102
Tth111I	GACNNNGTC	1 cut(s)	1097
VpaK11BI	GGWCC	1 cut(s)	979
XspI	CTAG	3 cut(s)	174, 953, 1068

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