Basic Information

Type: gene

Biological Identity

Species

arabidopsis_thaliana

Chromosome

Orthogroup ID

OG0007246

Physical Location & Seq

Genomic Coordinates Reverse (-)

22997021 .. 23000221

Gene Structure 3201 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

AT3G62110.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1416 bp

ATGAAGAGATCTTTCCTTCTCTTGTATGTGCTCCTGGTACAGGCCTTCTATGGGGCTTGGTGTAGTGTTGGAGAAAGCCTGCATTGTGAATATTCCAATTTAGCGAGTCTTCACCGGCCTCACAGCGTATCGATTACAGAGTTTGGAGCGGTTGGAGATGGTGTGACTCTAAACACTAAAGCCTTTCAGAATGCTCTGTTCTACCTCAATTCTTTCTCTGATAAAGGCGGGGCCAAGCTTTTTGTTCCCGCTGGTCAGTGGCTTACCGGGAGTTTCGACCTTATCAGTCACCTCACCTTATGGCTAGATAAAGGTGCAACGATTCTCGGGTCAACGAGCTCAGAGAATTGGCCCGTGGTTGATCCATTACCATCATATGGACGAGGAAGAGAATTGCCCGGTAGAAGACACAGAAGTCTTATATATGGTCAGAATCTCACAGATGTAGTCATAACAGGCGAGAACGGGACAATTGATGGTCAAGGAACTGTATGGTGGGATTGGTTTAGAAATGGAGAGCTTAACTATACAAGACCTCATCTTGTTGAGCTCATGAACTCTACTGGTCTGATCATCTCCAACCTCACATTCTTGAATTCACCGTTTTGGAACATTCATCCTGTTTATTGCAGAGATGTTGTTGTAAAGAATCTCACAATTTTGGCTCCTCTTGAATCTCCAAATACAGATGGAGTTGATCCAGATTCATCAACTAATGTTTGCATAGAGGATTGTTACATAGTTACCGGGGATGATTTGGTATCGATAAAAAGCGGATGGGATGAGTATGGAATATCCTACGCAAGACCGAGCTCCAAGATCAAGATTAATCGGTTAACAGGTCAAACTACTTCAAGCTCAGGAATAGCAATAGGAAGTGAAATGTCGGGAGGTGTATCCGAAATATACATTAAAGACTTACATTTGTTCAATTCGAATACTGGAATCAGAATCAAGACTTCTGCTGGAAGAGGCGGGTATGTTAGAAACGTTCACATCTTGAACGTGAAGCTCGATAATGTAAAGAAAGCGATTAGGTTCACCGGTAAGTACGGTGAACATCCTGATGAGAAATACGATCCCAAAGCACTCCCAGCTATAGAGAAAATCACCTTTGAGAATGTAAATGGCGATGGAATAGGTGTTGCGGGTCTTCTTGAAGGTATAGAAGGAGATGTGTTTAAGAATATATGTTTCCTTAATGTTACTCTTAGAGTGAAGAAGAATTCGAAGAAATCACCATGGGAATGCTCGAATGTGAGAGGTTATTCACAGTGGGTTTCGCCGGAAATTACTTGTGATTCTTTGAAAGAGAGTATATTCCCGGAACATGGATCTGATTGTTTCGGGTTATCGGAAAATAATATGGAGATATCAAGTGGTTTAAGTAGATCACCATGGTTACTTTCTTGGTAA

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

Glyco_hydro_28 Pectate_lyase_3

Protein Analysis

471

Amino Acids

52.0

Weight (kDa)

6.03

Isoelectric Point (pI)

37.77

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Pect-lyase_RHGA_epim	PF12708	43 - 281	3.9e-06	Rhamnogalacturonase A/epimerase, pectate lyase-like
Glyco_hydro_28	PF00295	138 - 421	5.6e-45	Glycosyl hydrolases family 28

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: OG0007246)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G62110 AT3G62110
fragaria_vesca	FvH4_1g26220 FvH4_1g26220 FvH4_1g26220 FvH4_1g26220 FvH4_1g26220 FvH4_1g26220
malus_domestica	MD09G1290500.v1.1
prunus_persica	Prupe.3G002500_v2.0.a1 Prupe.3G002500_v2.0.a1 Prupe.3G002500_v2.0.a1 Prupe.3G002500_v2.0.a1
pyrus_communis	pycom09g19830 pycom17g28100
rosa_chinensis	RchiOBHm_Chr3g0485761
rosa_laevigata	RLG00000023127
rosa_multiflora	Rmu_sc0003005.1_g000001
rosa_roxburghii	Rroxscaffold_6G00396340
rosa_rugosa	Rorug03G0221200
rosa_samantha	Rh3AG270500 Rh3BG306000 Rh3CG304400 Rh3DG300500
rosa_wichuraiana	Rw3G024090

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	414
AccB7I	CCANNNNNTGG	1 cut(s)	377
AccBSI	CCGCTC	1 cut(s)	149
AciI	CCGC	6 cut(s)	149, 228, 249, 774, 975, 1148
AclI	AACGTT	1 cut(s)	990
AclWI	GGATC	4 cut(s)	356, 692, 1073, 1342
AcsI	RAATTY	2 cut(s)	595, 1225
AfaI	GTAC	2 cut(s)	39, 1052
AfiI	CCNNNNNNNGG	4 cut(s)	40, 51, 377, 1331
AgeI	ACCGGT	1 cut(s)	1043
AgsI	TTSAA	7 cut(s)	595, 674, 855, 931, 1003, 1160, 1309
AjnI	CCWGG	1 cut(s)	33
AjuI	GAANNNNNNNTTGG	2 cut(s)	572, 604
AluBI	AGCT	8 cut(s)	238, 339, 520, 550, 813, 858, 1012, 1097
AluI	AGCT	8 cut(s)	238, 339, 520, 550, 813, 858, 1012, 1097
Alw21I	GWGCWC	4 cut(s)	33, 341, 552, 815
AlwI	GGATC	4 cut(s)	356, 692, 1073, 1342
Ama87I	CYCGRG	1 cut(s)	326
AoxI	GGCC	4 cut(s)	42, 116, 231, 350
ApoI	RAATTY	2 cut(s)	595, 1225
AseI	ATTAAT	1 cut(s)	828
AsiGI	ACCGGT	1 cut(s)	1043
AspS9I	GGNCC	2 cut(s)	231, 351
AsuC2I	CCSGG	4 cut(s)	268, 399, 748, 1325
AsuHPI	GGTGA	9 cut(s)	104, 281, 286, 591, 1033, 1067, 1102, 1230, 1386
AsuII	TTCGAA	2 cut(s)	935, 1229
AvaI	CYCGRG	1 cut(s)	326
BanII	GRGCYC	3 cut(s)	341, 552, 815
BbsI	GAAGAC	3 cut(s)	101, 412, 1145
Bbv12I	GWGCWC	4 cut(s)	33, 341, 552, 815
BccI	CCATC	6 cut(s)	152, 379, 470, 683, 771, 1127
BciT130I	CCWGG	1 cut(s)	35
BciVI	GTATCC	1 cut(s)	907
BclI	TGATCA	1 cut(s)	570
BcnI	CCSGG	4 cut(s)	268, 399, 748, 1325
BfaI	CTAG	1 cut(s)	305
BfmI	CTRYAG	1 cut(s)	1098
BfuI	GTATCC	1 cut(s)	907
BglII	AGATCT	1 cut(s)	8
Bme1390I	CCNGG	5 cut(s)	35, 268, 399, 748, 1325
BmeT110I	CYCGRG	1 cut(s)	326
BmgT120I	GGNCC	2 cut(s)	231, 351
BmiI	GGNNCC	2 cut(s)	232, 666
BmrFI	CCNGG	5 cut(s)	35, 268, 399, 748, 1325
BpiI	GAAGAC	3 cut(s)	101, 412, 1145
Bpu10I	CCTNAGC	1 cut(s)	859
Bpu14I	TTCGAA	2 cut(s)	935, 1229
BpuMI	CCSGG	4 cut(s)	268, 399, 748, 1325
Bsa29I	ATCGAT	2 cut(s)	131, 764
BsaJI	CCNNGG	4 cut(s)	354, 747, 1241, 1397
BsaWI	WCCGGW	1 cut(s)	1043
BsaXI	ACNNNNNCTCC	2 cut(s)	147, 177
Bsc4I	CCNNNNNNNGG	4 cut(s)	40, 51, 377, 1331
Bse118I	RCCGGY	2 cut(s)	114, 1043
Bse1I	ACTGG	2 cut(s)	568, 946
BseBI	CCWGG	1 cut(s)	35
BseCI	ATCGAT	2 cut(s)	131, 764
BseDI	CCNNGG	4 cut(s)	354, 747, 1241, 1397
BseGI	GGATG	5 cut(s)	616, 757, 782, 787, 1060
BseLI	CCNNNNNNNGG	4 cut(s)	40, 51, 377, 1331
BseMII	CTCAG	2 cut(s)	354, 873
BseNI	ACTGG	2 cut(s)	568, 946
BseRI	GAGGAG	1 cut(s)	657
BseYI	CCCAGC	1 cut(s)	1093
BshFI	GGCC	4 cut(s)	44, 118, 233, 352
BshTI	ACCGGT	1 cut(s)	1043
BshVI	ATCGAT	2 cut(s)	131, 764
BsiHKAI	GWGCWC	4 cut(s)	33, 341, 552, 815
BsiHKCI	CYCGRG	1 cut(s)	326
BsiSI	CCGG	7 cut(s)	115, 267, 399, 747, 1044, 1286, 1325
BslFI	GGGAC	1 cut(s)	481
BslI	CCNNNNNNNGG	4 cut(s)	40, 51, 377, 1331
BsmFI	GGGAC	1 cut(s)	481
BsmI	GAATGC	2 cut(s)	196, 1253
BsnI	GGCC	4 cut(s)	44, 118, 233, 352
BsoBI	CYCGRG	1 cut(s)	326
Bsp119I	TTCGAA	2 cut(s)	935, 1229
Bsp1286I	GDGCHC	4 cut(s)	33, 341, 552, 815
Bsp143I	GATC	8 cut(s)	8, 361, 570, 697, 819, 1078, 1334, 1391
Bsp19I	CCATGG	2 cut(s)	1241, 1397
BspACI	CCGC	6 cut(s)	149, 228, 249, 774, 975, 1148
BspANI	GGCC	4 cut(s)	44, 118, 233, 352
BspCNI	CTCAG	2 cut(s)	353, 872
BspDI	ATCGAT	2 cut(s)	131, 764
BspHI	TCATGA	1 cut(s)	552
BspLI	GGNNCC	2 cut(s)	232, 666
BspPI	GGATC	4 cut(s)	356, 692, 1073, 1342
BspT104I	TTCGAA	2 cut(s)	935, 1229
BsrBI	CCGCTC	1 cut(s)	149
BsrFI	RCCGGY	2 cut(s)	114, 1043
BsrI	ACTGG	2 cut(s)	568, 946
BssAI	RCCGGY	2 cut(s)	114, 1043
BssECI	CCNNGG	4 cut(s)	354, 747, 1241, 1397
BssMI	GATC	8 cut(s)	8, 361, 570, 697, 819, 1078, 1334, 1391
BssT1I	CCWWGG	2 cut(s)	1241, 1397
Bst2UI	CCWGG	1 cut(s)	35
Bst4CI	ACNGT	4 cut(s)	490, 603, 1055, 1275
Bst6I	CTCTTC	2 cut(s)	382, 964
BstBI	TTCGAA	2 cut(s)	935, 1229
BstC8I	GCNNGC	1 cut(s)	80
BstDEI	CTNAG	3 cut(s)	340, 859, 1211
BstDSI	CCRYGG	3 cut(s)	354, 1241, 1397
BstENI	CCTNNNNNAGG	1 cut(s)	38
BstF5I	GGATG	5 cut(s)	616, 757, 782, 787, 1060
BstKTI	GATC	8 cut(s)	11, 364, 573, 700, 822, 1081, 1337, 1394
BstMBI	GATC	8 cut(s)	8, 361, 570, 697, 819, 1078, 1334, 1391
BstMWI	GCNNNNNNNGC	1 cut(s)	1094
BstNI	CCWGG	1 cut(s)	35
BstSCI	CCNGG	5 cut(s)	33, 266, 397, 746, 1323
BstSFI	CTRYAG	1 cut(s)	1098
BstV2I	GAAGAC	3 cut(s)	101, 412, 1145
BstX2I	RGATCY	2 cut(s)	8, 1334
BstYI	RGATCY	2 cut(s)	8, 1334
Bsu15I	ATCGAT	2 cut(s)	131, 764
BsuI	GTATCC	1 cut(s)	907
BsuRI	GGCC	4 cut(s)	44, 118, 233, 352
BsuTUI	ATCGAT	2 cut(s)	131, 764
BtgI	CCRYGG	3 cut(s)	354, 1241, 1397
BtgZI	GCGATG	1 cut(s)	1146
BtsCI	GGATG	5 cut(s)	616, 757, 782, 787, 1060
BtsIMutI	CAGTG	2 cut(s)	263, 1280
Cac8I	GCNNGC	1 cut(s)	80
CciI	TCATGA	1 cut(s)	552
Cfr10I	RCCGGY	2 cut(s)	114, 1043
Cfr13I	GGNCC	2 cut(s)	231, 351
ClaI	ATCGAT	2 cut(s)	131, 764
Csp6I	GTAC	2 cut(s)	38, 1051
CspAI	ACCGGT	1 cut(s)	1043
CviAII	CATG	4 cut(s)	553, 1242, 1331, 1398
CviQI	GTAC	2 cut(s)	38, 1051
DdeI	CTNAG	3 cut(s)	340, 859, 1211
DpnI	GATC	8 cut(s)	10, 363, 572, 699, 821, 1080, 1336, 1393
DpnII	GATC	8 cut(s)	8, 361, 570, 697, 819, 1078, 1334, 1391
DrdI	GACNNNNNNGTC	1 cut(s)	414
DseDI	GACNNNNNNGTC	1 cut(s)	414
Eam1104I	CTCTTC	2 cut(s)	382, 964
EarI	CTCTTC	2 cut(s)	382, 964
Ecl136II	GAGCTC	3 cut(s)	339, 550, 813
Eco130I	CCWWGG	2 cut(s)	1241, 1397
Eco147I	AGGCCT	1 cut(s)	44
Eco24I	GRGCYC	3 cut(s)	341, 552, 815
Eco32I	GATATC	1 cut(s)	1374
Eco53kI	GAGCTC	3 cut(s)	339, 550, 813
Eco88I	CYCGRG	1 cut(s)	326
EcoICRI	GAGCTC	3 cut(s)	339, 550, 813
EcoNI	CCTNNNNNAGG	1 cut(s)	38
EcoRI	GAATTC	2 cut(s)	595, 1225
EcoRII	CCWGG	1 cut(s)	33
EcoRV	GATATC	1 cut(s)	1374
EcoT14I	CCWWGG	2 cut(s)	1241, 1397
EcoT38I	GRGCYC	3 cut(s)	341, 552, 815
ErhI	CCWWGG	2 cut(s)	1241, 1397
FaeI	CATG	4 cut(s)	556, 1245, 1334, 1401
FaqI	GGGAC	1 cut(s)	481
FatI	CATG	4 cut(s)	552, 1241, 1330, 1397
FauI	CCCGC	4 cut(s)	221, 256, 968, 1141
FauNDI	CATATG	1 cut(s)	376
FbaI	TGATCA	1 cut(s)	570
FokI	GGATG	5 cut(s)	603, 764, 789, 794, 1047
FriOI	GRGCYC	3 cut(s)	341, 552, 815
FspBI	CTAG	1 cut(s)	305
GsaI	CCCAGC	1 cut(s)	1097
HaeIII	GGCC	4 cut(s)	44, 118, 233, 352
HapII	CCGG	7 cut(s)	115, 267, 399, 747, 1044, 1286, 1325
Hin1II	CATG	4 cut(s)	556, 1245, 1334, 1401
HincII	GTYRAC	2 cut(s)	333, 837
HindII	GTYRAC	2 cut(s)	333, 837
HindIII	AAGCTT	1 cut(s)	236
HpaI	GTTAAC	1 cut(s)	837
HpaII	CCGG	7 cut(s)	115, 267, 399, 747, 1044, 1286, 1325
HphI	GGTGA	9 cut(s)	104, 281, 286, 591, 1033, 1067, 1102, 1230, 1386
Hpy166II	GTNNAC	5 cut(s)	333, 837, 994, 1041, 1058
Hpy188I	TCNGA	9 cut(s)	189, 220, 343, 432, 570, 901, 950, 1339, 1357
Hpy8I	GTNNAC	5 cut(s)	333, 837, 994, 1041, 1058
HpyAV	CCTTC	4 cut(s)	26, 55, 1154, 1163
HpyCH4III	ACNGT	4 cut(s)	490, 603, 1055, 1275
HpyCH4IV	ACGT	2 cut(s)	990, 1005
HpyCH4V	TGCA	4 cut(s)	82, 317, 630, 723
HpyF10VI	GCNNNNNNNGC	1 cut(s)	1094
HpyF3I	CTNAG	3 cut(s)	340, 859, 1211
HpySE526I	ACGT	2 cut(s)	990, 1005
Hsp92II	CATG	4 cut(s)	556, 1245, 1334, 1401
Ksp22I	TGATCA	1 cut(s)	570
KspAI	GTTAAC	1 cut(s)	837
Kzo9I	GATC	8 cut(s)	8, 361, 570, 697, 819, 1078, 1334, 1391
LmnI	GCTCC	4 cut(s)	36, 146, 670, 818
MaeI	CTAG	1 cut(s)	305
MaeII	ACGT	2 cut(s)	990, 1005
MaeIII	GTNAC	6 cut(s)	163, 287, 734, 742, 1204, 1401
MalI	GATC	8 cut(s)	10, 363, 572, 699, 821, 1080, 1336, 1393
MbiI	CCGCTC	1 cut(s)	149
MboI	GATC	8 cut(s)	8, 361, 570, 697, 819, 1078, 1334, 1391
MboII	GAAGA	9 cut(s)	16, 101, 399, 417, 981, 1145, 1231, 1234, 1243
MfeI	CAATTG	1 cut(s)	471
MflI	RGATCY	2 cut(s)	8, 1334
MhlI	GDGCHC	4 cut(s)	33, 341, 552, 815
MlyI	GAGTC	2 cut(s)	115, 160
MmeI	TCCRAC	3 cut(s)	49, 133, 603
MseI	TTAA	7 cut(s)	522, 828, 836, 912, 1182, 1200, 1385
MslI	CAYNNNNRTG	2 cut(s)	1065, 1246
MspA1I	CMGCKG	1 cut(s)	251
MspI	CCGG	7 cut(s)	115, 267, 399, 747, 1044, 1286, 1325
MspR9I	CCNGG	5 cut(s)	35, 268, 399, 748, 1325
MunI	CAATTG	1 cut(s)	471
Mva1269I	GAATGC	2 cut(s)	196, 1253
MvaI	CCWGG	1 cut(s)	35
MwoI	GCNNNNNNNGC	1 cut(s)	1094
NciI	CCSGG	4 cut(s)	268, 399, 748, 1325
NcoI	CCATGG	2 cut(s)	1241, 1397
NdeI	CATATG	1 cut(s)	376
NdeII	GATC	8 cut(s)	8, 361, 570, 697, 819, 1078, 1334, 1391
NlaIII	CATG	4 cut(s)	556, 1245, 1334, 1401
NlaIV	GGNNCC	2 cut(s)	232, 666
NmuCI	GTSAC	2 cut(s)	163, 287
NspV	TTCGAA	2 cut(s)	935, 1229
PagI	TCATGA	1 cut(s)	552
PceI	AGGCCT	1 cut(s)	44
PcsI	WCGNNNNNNNCGW	1 cut(s)	1011
PctI	GAATGC	2 cut(s)	196, 1253
PfeI	GAWTC	8 cut(s)	322, 433, 649, 674, 704, 945, 951, 1301
PflMI	CCANNNNNTGG	1 cut(s)	377
PfoI	TCCNGGA	1 cut(s)	1323
PinAI	ACCGGT	1 cut(s)	1043
PleI	GAGTC	2 cut(s)	114, 160
PpsI	GAGTC	2 cut(s)	114, 160
PshBI	ATTAAT	1 cut(s)	828
Psp124BI	GAGCTC	3 cut(s)	341, 552, 815
Psp1406I	AACGTT	1 cut(s)	990
Psp6I	CCWGG	1 cut(s)	33
PspFI	CCCAGC	1 cut(s)	1093
PspGI	CCWGG	1 cut(s)	33
PspN4I	GGNNCC	2 cut(s)	232, 666
PspPI	GGNCC	2 cut(s)	231, 351
PsuI	RGATCY	2 cut(s)	8, 1334
RsaI	GTAC	2 cut(s)	39, 1052
RsaNI	GTAC	2 cut(s)	38, 1051
RseI	CAYNNNNRTG	2 cut(s)	1065, 1246
SacI	GAGCTC	3 cut(s)	341, 552, 815
SaqAI	TTAA	7 cut(s)	522, 828, 836, 912, 1182, 1200, 1385
Sau3AI	GATC	8 cut(s)	8, 361, 570, 697, 819, 1078, 1334, 1391
Sau96I	GGNCC	2 cut(s)	231, 351
SchI	GAGTC	2 cut(s)	115, 160
ScrFI	CCNGG	5 cut(s)	35, 268, 399, 748, 1325
SduI	GDGCHC	4 cut(s)	33, 341, 552, 815
SfcI	CTRYAG	1 cut(s)	1098
SfuI	TTCGAA	2 cut(s)	935, 1229
SmiMI	CAYNNNNRTG	2 cut(s)	1065, 1246
SseBI	AGGCCT	1 cut(s)	44
SsiI	CCGC	6 cut(s)	149, 228, 249, 774, 975, 1148
SspI	AATATT	1 cut(s)	92
SspMI	CTAG	1 cut(s)	305
SstI	GAGCTC	3 cut(s)	341, 552, 815
StuI	AGGCCT	1 cut(s)	44
StyD4I	CCNGG	5 cut(s)	33, 266, 397, 746, 1323
StyI	CCWWGG	2 cut(s)	1241, 1397
TaaI	ACNGT	4 cut(s)	490, 603, 1055, 1275
TaiI	ACGT	2 cut(s)	993, 1008
TaqI	TCGA	7 cut(s)	131, 276, 764, 935, 1014, 1229, 1253
TaqII	GACCGA	1 cut(s)	823
TfiI	GAWTC	8 cut(s)	322, 433, 649, 674, 704, 945, 951, 1301
Tru1I	TTAA	7 cut(s)	522, 828, 836, 912, 1182, 1200, 1385
Tru9I	TTAA	7 cut(s)	522, 828, 836, 912, 1182, 1200, 1385
TscAI	CASTG	2 cut(s)	263, 1280
TseFI	GTSAC	2 cut(s)	163, 287
Tsp45I	GTSAC	2 cut(s)	163, 287
TspDTI	ATGAA	4 cut(s)	17, 569, 605, 696
TspRI	CASTG	2 cut(s)	263, 1280
Van91I	CCANNNNNTGG	1 cut(s)	377
VspI	ATTAAT	1 cut(s)	828
XagI	CCTNNNNNAGG	1 cut(s)	38
XapI	RAATTY	2 cut(s)	595, 1225
XspI	CTAG	1 cut(s)	305

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