Basic Information

Type: gene

Biological Identity

Species

arabidopsis_thaliana

Chromosome

Orthogroup ID

OG0012331

Physical Location & Seq

Genomic Coordinates Reverse (-)

25554416 .. 25559499

Gene Structure 5084 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

AT5G63860.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1323 bp

ATGGCGGAGGATATGGCTGCCGACGAAGTTACGGCTCCTCCTCGTAAGGTTCTTATCATCTCCGCTGGTGCTAGCCACTCCGTCGCTCTTCTCTCTGGTGACATTGTTTGTTCTTGGGGTCGAGGAGAGGATGGACAGTTAGGTCATGGCGATGCAGAGGATCGACCTTCTCCGACTCAGCTTAGCGCTTTAGATGGCCACCAAATTGTTTCCGTTACCTGTGGTGCTGATCACACTGTTGCTTATTCACAATCAGGCATGGAAGTCTACAGTTGGGGATGGGGTGATTTTGGGAGATTAGGCCATGGTAACTCAAGCGACTTGTTTACTCCGCTACCAATCAAAGCATTGCACGGTATTCGGATCAAGCAGATTGCTTGTGGGGATAGTCATTGTTTGGCTGTCACTATGGAAGGAGAGGTCCAGAGTTGGGGCCGCAACCAGAATGGTCAACTTGGTCTGGGGGACACCGAAGATTCTCTAGTGCCTCAGAAGATTCAAGCCTTTGAGGGAATACGAATCAAAATGGTTGCTGCTGGTGCAGAACACACTGCTGCAGTTACAGAAGATGGTGACCTCTATGGATGGGGCTGGGGAAGATACGGAAATTTGGGATTAGGTGACCGGACTGACCGCTTAGTTCCTGAAAGAGTTACCTCTACTGGTGGTGAGAAAATGTCAATGGTTGCTTGTGGATGGCGGCACACAATATCAGTTTCCTACTCTGGAGCATTGTATACTTATGGATGGAGCAAATATGGACAGCTAGGACATGGAGACTTGGAGGATCACCTTATTCCTCACAAACTGGAAGCACTGAGCAACAGTTTTATCTCCCAGATTTCGGGAGGTTGGAGACATACAATGGCATTGACTTCAGATGGAAAACTATATGGATGGGGTTGGAATAAGTTTGGACAAGTAGGAGTCGGCAATAATTTAGATCAGTGTTCTCCTGTGCAAGTGCGATTTCCCGATGATCAGAAAGTAGTTCAAGTCTCATGTGGATGGAGACATACCTTGGCTGTCACTGAAAGAAATAACGTGTTTGCTTGGGGTAGAGGTACAAATGGACAGCTCGGCATTGGAGAGTCGGTTGACAGGAACTTTCCCAAGATTATAGAGGCACTCAGCGTCGATGGAGCAAGTGGACAACATATAGAATCTTCTAATATCGATCCATCTTCAGGGAAAAGCTGGGTGTCGCCTGCAGAGAGATATGCAGTTGTTCCTGATGAAACGGGCCTAACGGATGGTTCAAGCAAAGGTAATGGAGGTGATATCAGTGTTCCACAAACTGATGTCAAGCGTGTACGAATTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000785 GO:0003674 GO:0003682 GO:0005085 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005694 GO:0005737 GO:0005829 GO:0008150 GO:0009314 GO:0009411 GO:0009416 GO:0009605 GO:0009628 GO:0009649 GO:0010224 GO:0019899 GO:0042752 GO:0042802 GO:0042803 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0044422 GO:0044424 GO:0044427 GO:0044444 GO:0044446 GO:0044464 GO:0046983 GO:0050789 GO:0050896 GO:0051020 GO:0065007 GO:0065009 GO:0098772

KEGG Pathways

Metabolic & Signaling

ko00230 ko00240 ko01100 ko03030 ko03410 ko03420 ko03430 ko03440 ko05166 map00230 map00240 map01100 map03030 map03410 map03420 map03430 map03440 map05166

Pfam Domains

Protein Families

RCC1

Protein Analysis

440

Amino Acids

47.12

Weight (kDa)

5.42

Isoelectric Point (pI)

30.29

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
WD40_RLD	PF25390	16 - 115	3.7e-25	RCC1-like domain
Alsin_RLD	PF25384	29 - 143	1.2e-06	Alsin RCC1-like domain
RCC1	PF00415	36 - 81	3.9e-15	Regulator of chromosome condensation (RCC1) repeat
RCC1_2	PF13540	69 - 98	6.7e-06	Regulator of chromosome condensation (RCC1) repeat
RCC1	PF00415	88 - 135	9.1e-15	Regulator of chromosome condensation (RCC1) repeat
WD40_RLD	PF25390	117 - 377	1.5e-78	RCC1-like domain
RCC1_2	PF13540	122 - 151	3.1e-10	Regulator of chromosome condensation (RCC1) repeat
RCC1	PF00415	138 - 187	6.4e-17	Regulator of chromosome condensation (RCC1) repeat
RCC1_2	PF13540	177 - 202	9.1e-09	Regulator of chromosome condensation (RCC1) repeat
RCC1	PF00415	190 - 238	3.4e-15	Regulator of chromosome condensation (RCC1) repeat
RCC1	PF00415	242 - 291	3.9e-14	Regulator of chromosome condensation (RCC1) repeat
Alsin_RLD	PF25384	243 - 332	4.4e-08	Alsin RCC1-like domain
RCC1_2	PF13540	278 - 307	3e-12	Regulator of chromosome condensation (RCC1) repeat
RCC1	PF00415	294 - 343	7.8e-18	Regulator of chromosome condensation (RCC1) repeat
RCC1_2	PF13540	330 - 359	1.8e-11	Regulator of chromosome condensation (RCC1) repeat
RCC1	PF00415	348 - 378	3.6e-07	Regulator of chromosome condensation (RCC1) repeat

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)

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Orthologous Genes (Group: OG0012331)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G63860
fragaria_vesca	FvH4_1g25000 FvH4_1g25000
malus_domestica	MD15G1136000.v1.1
prunus_persica	Prupe.4G277200_v2.0.a1
pyrus_communis	pycom15g12260
rosa_chinensis	RchiOBHm_Chr2g0122641
rosa_laevigata	RLG00000018697
rosa_multiflora	Rmu_sc0003133.1_g000023
rosa_roxburghii	Rroxscaffold_2G00121410
rosa_rugosa	Rorug02G0240700 Rorug02G0240800 Rorug02G0240900 Rorug02G0241000
rosa_samantha	Rh2AG298800 Rh2BG307700 Rh2CG285800 Rh2DG322400
rosa_wichuraiana	Rw2G023810

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	141
AccI	GTMKAC	2 cut(s)	267, 737
AciI	CCGC	6 cut(s)	5, 63, 332, 436, 634, 700
AclWI	GGATC	4 cut(s)	168, 371, 795, 1172
AcoI	YGGCCR	1 cut(s)	196
AcsI	RAATTY	2 cut(s)	607, 1317
AcuI	CTGAAG	2 cut(s)	861, 1170
AfaI	GTAC	2 cut(s)	1066, 1314
AfeI	AGCGCT	1 cut(s)	187
AfiI	CCNNNNNNNGG	3 cut(s)	430, 844, 1187
AflIII	ACRYGT	1 cut(s)	1044
AgsI	TTSAA	3 cut(s)	500, 995, 1260
AluBI	AGCT	4 cut(s)	181, 766, 1078, 1197
AluI	AGCT	4 cut(s)	181, 766, 1078, 1197
Alw26I	GTCTC	4 cut(s)	771, 850, 1003, 1006
AlwI	GGATC	4 cut(s)	168, 371, 795, 1172
Aor51HI	AGCGCT	1 cut(s)	187
AoxI	GGCC	4 cut(s)	196, 301, 433, 1243
ApeKI	GCWGC	3 cut(s)	17, 533, 554
ApoI	RAATTY	2 cut(s)	607, 1317
AspLEI	GCGC	1 cut(s)	188
AspS9I	GGNCC	3 cut(s)	421, 433, 1243
AsuHPI	GGTGA	7 cut(s)	110, 296, 584, 632, 680, 782, 1289
AsuNHI	GCTAGC	1 cut(s)	71
AvaII	GGWCC	1 cut(s)	421
BalI	TGGCCA	1 cut(s)	198
BbvI	GCAGC	3 cut(s)	4, 520, 541
BceAI	ACGGC	1 cut(s)	48
BcgI	CGANNNNNNTGC	2 cut(s)	341, 375
BclI	TGATCA	2 cut(s)	229, 979
BcoDI	GTCTC	4 cut(s)	771, 850, 1003, 1006
BfaI	CTAG	3 cut(s)	72, 482, 767
BfmI	CTRYAG	3 cut(s)	268, 555, 1209
BfoI	RGCGCY	1 cut(s)	189
BisI	GCNGC	5 cut(s)	18, 436, 534, 555, 701
BlpI	GCTNAGC	1 cut(s)	182
BlsI	GCNGC	5 cut(s)	19, 437, 535, 556, 702
Bme18I	GGWCC	1 cut(s)	421
BmgT120I	GGNCC	3 cut(s)	421, 433, 1243
BmiI	GGNNCC	2 cut(s)	36, 434
BmsI	GCATC	1 cut(s)	142
BmtI	GCTAGC	1 cut(s)	75
BpmI	CTGGAG	1 cut(s)	747
Bpu1102I	GCTNAGC	1 cut(s)	182
BpuEI	CTTGAG	1 cut(s)	298
Bsa29I	ATCGAT	1 cut(s)	1176
BsaJI	CCNNGG	2 cut(s)	304, 1020
BsaWI	WCCGGW	1 cut(s)	624
BsaXI	ACNNNNNCTCC	4 cut(s)	22, 52, 1080, 1110
Bsc4I	CCNNNNNNNGG	3 cut(s)	430, 844, 1187
Bse1I	ACTGG	2 cut(s)	667, 813
Bse3DI	GCAATG	1 cut(s)	347
BseCI	ATCGAT	1 cut(s)	1176
BseDI	CCNNGG	2 cut(s)	304, 1020
BseGI	GGATG	8 cut(s)	136, 284, 590, 701, 752, 902, 1013, 1258
BseLI	CCNNNNNNNGG	3 cut(s)	430, 844, 1187
BseMI	GCAATG	1 cut(s)	347
BseMII	CTCAG	4 cut(s)	191, 503, 809, 1144
BseNI	ACTGG	2 cut(s)	667, 813
BseRI	GAGGAG	3 cut(s)	27, 30, 138
BseXI	GCAGC	3 cut(s)	4, 520, 541
BseYI	CCCAGC	2 cut(s)	591, 1197
BsgI	GTGCAG	1 cut(s)	561
BshFI	GGCC	4 cut(s)	198, 303, 435, 1245
BshVI	ATCGAT	1 cut(s)	1176
BsiSI	CCGG	1 cut(s)	625
BslFI	GGGAC	1 cut(s)	479
BslI	CCNNNNNNNGG	3 cut(s)	430, 844, 1187
BsmAI	GTCTC	4 cut(s)	771, 850, 1003, 1006
BsmFI	GGGAC	1 cut(s)	479
BsnI	GGCC	4 cut(s)	198, 303, 435, 1245
Bsp143I	GATC	7 cut(s)	160, 229, 363, 787, 943, 979, 1177
Bsp1720I	GCTNAGC	1 cut(s)	182
Bsp19I	CCATGG	1 cut(s)	304
BspACI	CCGC	6 cut(s)	5, 63, 332, 436, 634, 700
BspANI	GGCC	4 cut(s)	198, 303, 435, 1245
BspCNI	CTCAG	4 cut(s)	190, 502, 810, 1143
BspDI	ATCGAT	1 cut(s)	1176
BspLI	GGNNCC	2 cut(s)	36, 434
BspMAI	CTGCAG	2 cut(s)	559, 1213
BspOI	GCTAGC	1 cut(s)	75
BspPI	GGATC	4 cut(s)	168, 371, 795, 1172
BspQI	GCTCTTC	1 cut(s)	93
BsrDI	GCAATG	1 cut(s)	347
BsrI	ACTGG	2 cut(s)	667, 813
BssECI	CCNNGG	2 cut(s)	304, 1020
BssMI	GATC	7 cut(s)	160, 229, 363, 787, 943, 979, 1177
BssNAI	GTATAC	1 cut(s)	738
BssT1I	CCWWGG	2 cut(s)	304, 1020
Bst1107I	GTATAC	1 cut(s)	738
Bst4CI	ACNGT	5 cut(s)	138, 238, 272, 356, 827
Bst6I	CTCTTC	1 cut(s)	93
BstC8I	GCNNGC	2 cut(s)	73, 1209
BstDEI	CTNAG	6 cut(s)	177, 182, 489, 637, 818, 1130
BstDSI	CCRYGG	1 cut(s)	304
BstEII	GGTNACC	2 cut(s)	572, 620
BstF5I	GGATG	8 cut(s)	136, 284, 590, 701, 752, 902, 1013, 1258
BstH2I	RGCGCY	1 cut(s)	189
BstHHI	GCGC	1 cut(s)	188
BstKTI	GATC	7 cut(s)	163, 232, 366, 790, 946, 982, 1180
BstMAI	GTCTC	4 cut(s)	771, 850, 1003, 1006
BstMBI	GATC	7 cut(s)	160, 229, 363, 787, 943, 979, 1177
BstMWI	GCNNNNNNNGC	1 cut(s)	539
BstPI	GGTNACC	2 cut(s)	572, 620
BstSFI	CTRYAG	3 cut(s)	268, 555, 1209
BstV1I	GCAGC	3 cut(s)	4, 520, 541
BstZ17I	GTATAC	1 cut(s)	738
Bsu15I	ATCGAT	1 cut(s)	1176
BsuRI	GGCC	4 cut(s)	198, 303, 435, 1245
BsuTUI	ATCGAT	1 cut(s)	1176
BtgI	CCRYGG	1 cut(s)	304
BtgZI	GCGATG	1 cut(s)	165
BtsCI	GGATG	8 cut(s)	136, 284, 590, 701, 752, 902, 1013, 1258
BtsI	GCAGTG	1 cut(s)	549
BtsIMutI	CAGTG	6 cut(s)	234, 549, 815, 953, 1029, 1291
Cac8I	GCNNGC	2 cut(s)	73, 1209
CfoI	GCGC	1 cut(s)	188
Cfr13I	GGNCC	3 cut(s)	421, 433, 1243
ClaI	ATCGAT	1 cut(s)	1176
CseI	GACGC	1 cut(s)	1123
Csp6I	GTAC	2 cut(s)	1065, 1313
CviAII	CATG	5 cut(s)	146, 259, 305, 773, 1002
CviQI	GTAC	2 cut(s)	1065, 1313
DdeI	CTNAG	6 cut(s)	177, 182, 489, 637, 818, 1130
DpnI	GATC	7 cut(s)	162, 231, 365, 789, 945, 981, 1179
DpnII	GATC	7 cut(s)	160, 229, 363, 787, 943, 979, 1177
DrdI	GACNNNNNNGTC	1 cut(s)	141
DseDI	GACNNNNNNGTC	1 cut(s)	141
EaeI	YGGCCR	1 cut(s)	196
Eam1104I	CTCTTC	1 cut(s)	93
EarI	CTCTTC	1 cut(s)	93
EciI	GGCGGA	1 cut(s)	20
Eco130I	CCWWGG	2 cut(s)	304, 1020
Eco32I	GATATC	1 cut(s)	1282
Eco47I	GGWCC	1 cut(s)	421
Eco47III	AGCGCT	1 cut(s)	187
Eco57I	CTGAAG	2 cut(s)	861, 1170
Eco91I	GGTNACC	2 cut(s)	572, 620
EcoO65I	GGTNACC	2 cut(s)	572, 620
EcoRV	GATATC	1 cut(s)	1282
EcoT14I	CCWWGG	2 cut(s)	304, 1020
ErhI	CCWWGG	2 cut(s)	304, 1020
FaeI	CATG	5 cut(s)	149, 262, 308, 776, 1005
FaqI	GGGAC	1 cut(s)	479
FatI	CATG	5 cut(s)	145, 258, 304, 772, 1001
FbaI	TGATCA	2 cut(s)	229, 979
FblI	GTMKAC	2 cut(s)	267, 737
Fnu4HI	GCNGC	5 cut(s)	18, 436, 534, 555, 701
FokI	GGATG	8 cut(s)	143, 291, 597, 708, 759, 909, 1020, 1265
Fsp4HI	GCNGC	5 cut(s)	18, 436, 534, 555, 701
FspBI	CTAG	3 cut(s)	72, 482, 767
GlaI	GCGC	1 cut(s)	187
GluI	GCNGC	5 cut(s)	18, 436, 534, 555, 701
GsaI	CCCAGC	2 cut(s)	595, 1201
GsuI	CTGGAG	1 cut(s)	747
HaeII	RGCGCY	1 cut(s)	189
HaeIII	GGCC	4 cut(s)	198, 303, 435, 1245
HapII	CCGG	1 cut(s)	625
HgaI	GACGC	1 cut(s)	1123
HhaI	GCGC	1 cut(s)	188
Hin1II	CATG	5 cut(s)	149, 262, 308, 776, 1005
Hin6I	GCGC	1 cut(s)	186
HinP1I	GCGC	1 cut(s)	186
HincII	GTYRAC	2 cut(s)	452, 1099
HindII	GTYRAC	2 cut(s)	452, 1099
HinfI	GANTC	7 cut(s)	175, 476, 496, 519, 927, 1091, 1163
HpaII	CCGG	1 cut(s)	625
HphI	GGTGA	7 cut(s)	110, 296, 584, 632, 680, 782, 1289
Hpy166II	GTNNAC	7 cut(s)	268, 327, 452, 738, 1099, 1151, 1313
Hpy188I	TCNGA	5 cut(s)	174, 363, 492, 880, 984
Hpy188III	TCNNGA	6 cut(s)	424, 644, 726, 846, 974, 1232
Hpy8I	GTNNAC	7 cut(s)	268, 327, 452, 738, 1099, 1151, 1313
Hpy99I	CGWCG	3 cut(s)	26, 86, 1139
HpyAV	CCTTC	2 cut(s)	177, 407
HpyCH4III	ACNGT	5 cut(s)	138, 238, 272, 356, 827
HpyCH4IV	ACGT	1 cut(s)	1044
HpyCH4V	TGCA	7 cut(s)	155, 352, 542, 557, 961, 1211, 1223
HpyF10VI	GCNNNNNNNGC	1 cut(s)	539
HpyF3I	CTNAG	6 cut(s)	177, 182, 489, 637, 818, 1130
HpySE526I	ACGT	1 cut(s)	1044
Hsp92II	CATG	5 cut(s)	149, 262, 308, 776, 1005
HspAI	GCGC	1 cut(s)	186
Ksp22I	TGATCA	2 cut(s)	229, 979
Kzo9I	GATC	7 cut(s)	160, 229, 363, 787, 943, 979, 1177
LguI	GCTCTTC	1 cut(s)	93
LmnI	GCTCC	4 cut(s)	40, 728, 750, 1142
Lsp1109I	GCAGC	3 cut(s)	4, 520, 541
LweI	GCATC	1 cut(s)	142
MaeI	CTAG	3 cut(s)	72, 482, 767
MaeII	ACGT	1 cut(s)	1044
MalI	GATC	7 cut(s)	162, 231, 365, 789, 945, 981, 1179
MboI	GATC	7 cut(s)	160, 229, 363, 787, 943, 979, 1177
MboII	GAAGA	7 cut(s)	80, 485, 505, 578, 609, 1158, 1176
MlsI	TGGCCA	1 cut(s)	198
MluCI	AATT	4 cut(s)	204, 607, 937, 1317
MluNI	TGGCCA	1 cut(s)	198
MlyI	GAGTC	3 cut(s)	169, 936, 1100
MmeI	TCCRAC	3 cut(s)	197, 833, 884
Mox20I	TGGCCA	1 cut(s)	198
MscI	TGGCCA	1 cut(s)	198
MslI	CAYNNNNRTG	2 cut(s)	150, 1006
Msp20I	TGGCCA	1 cut(s)	198
MspA1I	CMGCKG	1 cut(s)	65
MspI	CCGG	1 cut(s)	625
MwoI	GCNNNNNNNGC	1 cut(s)	539
NcoI	CCATGG	1 cut(s)	304
NdeII	GATC	7 cut(s)	160, 229, 363, 787, 943, 979, 1177
NheI	GCTAGC	1 cut(s)	71
NlaIII	CATG	5 cut(s)	149, 262, 308, 776, 1005
NlaIV	GGNNCC	2 cut(s)	36, 434
NmeAIII	GCCGAG	1 cut(s)	1059
NmuCI	GTSAC	5 cut(s)	98, 403, 572, 620, 1027
PciSI	GCTCTTC	1 cut(s)	93
PfeI	GAWTC	4 cut(s)	476, 496, 519, 1163
PkrI	GCNGC	5 cut(s)	19, 437, 535, 556, 702
PleI	GAGTC	3 cut(s)	169, 935, 1099
PpsI	GAGTC	3 cut(s)	169, 935, 1099
PspEI	GGTNACC	2 cut(s)	572, 620
PspFI	CCCAGC	2 cut(s)	591, 1197
PspN4I	GGNNCC	2 cut(s)	36, 434
PspPI	GGNCC	3 cut(s)	421, 433, 1243
PstI	CTGCAG	2 cut(s)	559, 1213
RsaI	GTAC	2 cut(s)	1066, 1314
RsaNI	GTAC	2 cut(s)	1065, 1313
RseI	CAYNNNNRTG	2 cut(s)	150, 1006
SapI	GCTCTTC	1 cut(s)	93
SatI	GCNGC	5 cut(s)	18, 436, 534, 555, 701
Sau3AI	GATC	7 cut(s)	160, 229, 363, 787, 943, 979, 1177
Sau96I	GGNCC	3 cut(s)	421, 433, 1243
SchI	GAGTC	3 cut(s)	169, 936, 1100
SfaNI	GCATC	1 cut(s)	142
SfcI	CTRYAG	3 cut(s)	268, 555, 1209
SinI	GGWCC	1 cut(s)	421
SmiMI	CAYNNNNRTG	2 cut(s)	150, 1006
SmlI	CTYRAG	1 cut(s)	313
SmoI	CTYRAG	1 cut(s)	313
Sse9I	AATT	4 cut(s)	204, 607, 937, 1317
SsiI	CCGC	6 cut(s)	5, 63, 332, 436, 634, 700
SspMI	CTAG	3 cut(s)	72, 482, 767
StyI	CCWWGG	2 cut(s)	304, 1020
TaaI	ACNGT	5 cut(s)	138, 238, 272, 356, 827
TaiI	ACGT	1 cut(s)	1047
TaqI	TCGA	4 cut(s)	121, 163, 1137, 1176
TasI	AATT	4 cut(s)	204, 607, 937, 1317
TauI	GCSGC	2 cut(s)	438, 703
TfiI	GAWTC	4 cut(s)	476, 496, 519, 1163
TscAI	CASTG	6 cut(s)	241, 556, 822, 953, 1036, 1291
TseFI	GTSAC	5 cut(s)	98, 403, 572, 620, 1027
TseI	GCWGC	3 cut(s)	17, 533, 554
Tsp45I	GTSAC	5 cut(s)	98, 403, 572, 620, 1027
TspDTI	ATGAA	1 cut(s)	1251
TspGWI	ACGGA	4 cut(s)	70, 202, 618, 1265
TspRI	CASTG	6 cut(s)	241, 556, 822, 953, 1036, 1291
VpaK11BI	GGWCC	1 cut(s)	421
XapI	RAATTY	2 cut(s)	607, 1317
XmiI	GTMKAC	2 cut(s)	267, 737
XspI	CTAG	3 cut(s)	72, 482, 767

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