Table 3 Annotation of cell cycle genes by cluster
From: Global gene expression analysis of apple fruit development from the floral bud to ripe fruit
FB cluster | ||||
|---|---|---|---|---|
EST | Genbank acc. | Best A. thaliana hita | e value | Descriptionb |
5019 | CN936403 | AT5G44680.1 | 1e-40 | methyladenine glycosylase family protein |
5126 | EB107042 | AT2G38620.1 | 9e-80 | CDKB1;2 cell division control protein |
33679 | CN929052 | AT2G47420.1 | 9e-18 | dimethyladenosine transferase |
59120 | CN862228 | AT5G42320.1 | 2e-12 | zinc carboxypeptidase family protein |
67405 | CN864463 | AT5G53000.1 | 3e-31 | protein phosphatase 2A-associated 46 kDa protein |
86932 | EB119954 | AT1G01490.1 | 2e-19 | heavy-metal-associated domain-containing protein |
124169 | CN937737 | AT1G18660.1 | 3e-67 | zinc finger (C3HC4-type RING finger) family protein |
134415 | CN888558 | AT3G62600.1 | 1e-153 | DNAJ heat shock family protein |
140667 | CN938500 | AT2G24490.1 | 8e-46 | replication protein, putative |
222173 | CN876164 | AT4G11010.1 | 9e-47 | nucleoside diphosphate kinase 3, mitochondrial (NDK3) |
226032 | EG631233 | AT3G08500.1 | 3e-48 | myb family transcription factor (MYB83) |
254247 | CN912925 | AT1G10290.1 | 3e-49 | dynamin-like protein 6 (ADL6) |
256645 | EB151655 | AT1G79350.1 | 1e-77 | EMB1135 DNA-binding protein, putative |
257305 | CN908171 | AT3G57550.1 | 3e-41 | guanylate kinase 2 (GK-2) |
258270 | CN914773 | AT2G30110.1 | 1e-179 | ubiquitin activating enzyme 1 (UBA1) |
264677 | CN910366 | AT3G48160.2 | 6e-68 | E2F-like repressor E2L3 (E2L3) |
264992 | CN917058 | AT5G23430.1 | 1e-53 | transducin family protein/WD-40 repeat family protein |
EFD cluster | ||||
EST | Genbank acc. | Best A. thaliana hit | e value | Description |
12163 | EB109178 | AT3G28030.1 | 2e-27 | UV hypersensitive protein (UVH3) |
14094 | CN931474 | AT2G01440.1 | 6e-15 | ATP-dependent DNA helicase, putative |
15274 | CN932236 | AT3G25500.1 | 8e-26 | FH2 domain-containing protein |
19893 | CN925129 | AT1G73540.1 | 3e-11 | ATNUDT21 MutT/nudix family protein |
29516 | EB111254 | AT2G39730.1 | 9e-72 | RuBisCO activase |
31066 | CN927871 | AT3G23890.1 | 8e-13 | DNA topoisomerase II |
33027 | CN928590 | AT3G25500.1 | 3e-39 | FH2 domain-containing protein |
43417 | EB113579 | AT1G69770.1 | 3e-06 | chromomethylase 3 (CMT3) |
45185 | CN857495 | AT5G05510.1 | 2e-25 | low similarity to SP:O60566 Mitotic checkpoint serine/threonine-protein kinase BUB1 β |
62518 | EB116342 | AT3G08910.1 | 7e-67 | DNAJ heat shock protein |
64262 | CN850169 | AT2G30200.1 | 1e-148 | T27E13_6 |
85474 | CN869267 | AT1G68760.1 | 6e-54 | ATNUDT1 MutT/nudix family protein |
91885 | CN871666 | AT1G10520.1 | 3e-15 | DNA polymerase lambda (POLL) |
93419 | CN874495 | AT5G26751.1 | 4e-58 | shaggy-related protein kinase α/ASK-α (ASK1) |
95093 | CN875141 | AT5G18110.1 | 5e-60 | novel cap-binding protein (nCBP) |
105540 | CN886787 | AT3G51770.1 | 1e-111 | similar to tetratricopeptide repeat (TPR)-containing protein |
111728 | EB124553 | AT1G44900.1 | 3e-50 | DNA replication licensing factor |
118006 | EB125634 | AT2G21790.1 | 8e-45 | ribonucleoside-diphosphate reductase small chain, putative |
119405 | CN887179 | AT1G68010.1 | 1e-81 | glycerate dehydrogenase/NADH-dependent hydroxypyruvate reductase |
120390 | CN890521 | AT1G21660.1 | 7e-12 | low similarity to SP:O14976 Cyclin G-associated kinase |
138266 | CN937814 | AT2G17120.1 | 3e-79 | peptidoglycan-binding LysM domain-containing protein |
142020 | CN939277 | AT2G38810.1 | 2e-48 | histone H2A, putative |
142920 | EB127800 | AT5G57850.1 | 2e-08 | aminotransferase class IV family protein |
148629 | EB138792 | AT3G22630.1 | 2e-36 | 20S proteasome β subunit D (PBD1) (PRGB) |
149453 | CN897394 | AT5G55230.1 | 1e-118 | ATMAP65-1 Binds and bundles microtubules |
149668 | CN897544 | AT4G36080.1 | 1e-103 | FAT domain-containing protein/phosphatidylinositol 3- and 4-kinase family protein |
151134 | EB139596 | AT2G42580.1 | 5e-24 | tetratricopeptide repeat (TPR)-containing protein |
151602 | CN898773 | AT5G13780.1 | 8e-81 | GCN5-related N-acetyltransferase, putative, similar to ARD1 subunit |
152213 | CN940414 | AT2G35040.1 | 1e-112 | AICARFT/IMPCHase bienzyme family protein |
153604 | EB140203 | AT1G55350.1 | 0 | EMB1275 calpain-type cysteine protease family |
153992 | CN900578 | AT2G21790.1 | 1e-160 | R1 ribonucleoside-diphosphate reductase small chain, putative |
155385 | CN901052 | AT2G21790.1 | 2e-83 | R1 ribonucleoside-diphosphate reductase small chain, putative |
155966 | CN901211 | AT5G61060.1 | 2e-34 | histone deacetylase family protein |
159200 | CN940759 | AT2G14880.1 | 6e-36 | SWIB complex BAF60b domain-containing protein |
162529 | CN942994 | AT3G44110.1 | 1e-152 | DNAJ heat shock protein, putative (J3) |
163128 | CN943384 | AT1G20930.1 | 1e-102 | CDKB2;2 cell division control protein, putative |
163154 | CN943405 | AT5G61060.1 | 2e-84 | histone deacetylase family protein |
166835 | EE663942 | AT3G17880.1 | 1e-58 | tetratricoredoxin (TDX) |
170408 | EB140959 | AT3G08910.1 | 7e-59 | DNAJ heat shock protein, putative |
170963 | CN882668 | AT2G46225.1 | 2e-20 | ABI1L1 Encodes a subunit of the WAVE complex |
171493 | CN883039 | AT2G29570.1 | 1e-111 | PCNA2 proliferating cell nuclear antigen 2 (PCNA2) |
172325 | CN883596 | AT5G08020.1 | 7e-91 | similar to replication protein A1 (Oryza sativa) |
173799 | EB141951 | AT2G27960.1 | 6e-37 | CKS1 cyclin-dependent kinase |
180731 | CN904791 | AT1G75690.1 | 2e-55 | chaperone protein dnaJ-related |
181072 | CN904980 | AT3G18190.1 | 0 | chaperonin, putative |
184975 | EB148197 | AT5G44680.1 | 1e-90 | methyladenine glycosylase family protein |
186444 | EB149644 | AT3G19420.1 | 2e-12 | MLD14.22 |
186960 | EB150084 | AT3G08690.1 | 9e-27 | ubiquitin-conjugating enzyme 11 (UBC11), E2 |
213416 | EB157314 | AT1G62990.1 | 1e-126 | homeodomain transcription factor (KNAT7) |
220588 | EB132350 | AT3G48590.1 | 2e-15 | CCAAT-box binding transcription factor Hap5a, putative |
220604 | CN948726 | AT4G33260.1 | 8e-17 | WD-40 repeat family protein |
245977 | CN903005 | AT3G26730.1 | 1e-49 | zinc finger (C3HC4-type RING finger) family protein |
256235 | CN913864 | AT2G31320.1 | 0 | NAD(+) ADP-ribosyltransferase, putative |
256449 | CN916743 | AT3G22890.1 | 1e-165 | sulfate adenylyltransferase 1/ATP-sulfurylase 1 (APS1) |
257853 | CN914478 | AT5G52640.1 | 0 | heat shock protein 81-1 (HSP81-1) |
261756 | CN908391 | AT2G25050.1 | 5e-07 | formin homology 2 domain-containing protein |
264654 | CN910347 | AT5G67100.1 | 5e-87 | DNA-directed DNA polymerase α catalytic subunit, putative |
265667 | CN910570 | AT5G16270.1 | 3e-06 | Rad21/Rec8-like family protein |
266414 | EB152178 | AT5G40010.1 | 1e-112 | AAA-type ATPase family protein |
315707 | CN915704 | AT1G03080.1 | 4e-25 | kinase interacting family protein |
318786 | CN949202 | AT1G04820.1 | 4e-63 | tubulin α-2/α-4 chain (TUA4) |
Mid dev cluster | ||||
EST | Genbank acc. | Best A. thaliana hit | e value | Description |
109011 | CN880656 | AT1G29400.1 | 4e-77 | RNA recognition motif (RRM)-containing protein |
144884 | CN894104 | AT1G03190.1 | 1e-33 | DNA repair protein/transcription factor protein (UVH6) |
146572 | CN895134 | AT2G15580.1 | 2e-14 | zinc finger (C3HC4-type RING finger) family protein |
167024 | EG631355 | AT5G66770.1 | 0 | scarecrow transcription factor family protein |
182020 | EB143575 | AT1G69840.1 | 3e-73 | band 7 family protein |
185452 | EB148668 | AT1G07350.1 | 1e-31 | transformer serine/arginine-rich ribonucleoprotein, putative |
214774 | CN946063 | AT1G26830.1 | 1e-75 | CUL3 Cullin, putative, similar to Cullin homolog 3 (CUL-3) |
268033 | CN918413 | AT5G64610.1 | 1e-142 | histone acetyltransferase, putative |
Ripening cluster | ||||
EST | Genbank acc. | Best A. thaliana hit | e value | Description |
541 | CN934040 | AT3G57220.1 | 1e-113 | UDP-GlcNAc:dolichol phosphate N-acetylglucosamine-1-phosphate transferase, putative, |
11629 | EB109003 | AT1G34260.1 | 1e-07 | phosphatidylinositol-4-phosphate 5-kinase family protein |
15678 | CN932487 | AT5G51600.1 | 3e-85 | microtubule associated protein (MAP65/ASE1) family protein |
57477 | CN860296 | AT2G44270.1 | 1e-164 | contains Pfam profile PF01171: PP-loop family |
59442 | CN862410 | AT1G73460.1 | 1e-35 | protein kinase family protein Pfam:PF00069 |
64262 | CN850169 | AT2G30200.1 | 1e-148 | expressed protein T27E13_6 |
64821 | CN863160 | AT5G51570.1 | 1e-141 | band 7 family protein |
68274 | CN864737 | AT5G26940.1 | 3e-59 | exonuclease family protein |
89547 | CN873630 | AT3G61140.1 | 2e-09 | COP9 signalosome complex subunit 1/CSN complex subunit 1 |
89732 | EB121320 | AT4G12600.1 | 8e-18 | ribosomal protein L7Ae/L30e/S12e/Gadd45 family protein |
93568 | CN874587 | AT3G10940.1 | 1e-108 | similar to protein phosphatase PTPKIS1 protein |
107778 | CN871562 | AT1G77600.1 | 6e-07 | expressed protein, weak similarity to Pds5 |
111901 | CN879476 | AT1G14400.1 | 1e-39 | ubiquitin-conjugating enzyme 1 (UBC1), E2 |
130406 | CN891639 | AT3G27180.1 | 5e-08 | expressed protein MYF5.5 |
132758 | CN892125 | AT5G48330.1 | 9e-55 | regulator of chromosome condensation (RCC1) family protein |
134470 | CN888599 | AT2G29900.1 | 2e-35 | presenilin family protein |
141926 | CN939221 | AT5G50960.1 | 1e-163 | similar to Nucleotide-binding protein 1 (NBP 1) |
143463 | CN890171 | AT1G69670.1 | 9e-75 | ATCUL3B cullin, putative |
146658 | CN895184 | AT5G12200.1 | 0 | dihydropyrimidinase (PYD2) |
147359 | EB138102 | AT1G05910.1 | 1e-111 | cell division cycle protein 48-related/CDC48-related |
147418 | CN895629 | AT3G18600.1 | 4e-32 | DEAD/DEAH box helicase, putative |
150678 | CN898212 | AT3G07760.1 | 3e-28 | expressed protein MLP3.21 |
155382 | CN901049 | AT3G24320.1 | 3e-73 | DNA mismatch repair MutS family (MSH1) |
159868 | EB128540 | AT2G19770.1 | 5e-45 | profilin 4 (PRO4) (PFN4) |
172304 | CN883582 | AT3G48530.1 | 2e-72 | CBS domain-containing protein |
175286 | CN904072 | AT4G25130.1 | 1e-100 | peptide methionine sulfoxide reductase, putative |
184340 | EB147575 | AT3G13230.1 | 2e-77 | expressed protein MDC11.5 |
185727 | EB148939 | AT5G21990.1 | 1e-107 | tetratricopeptide repeat (TPR)-containing protein |
186037 | EB149246 | AT4G25130.1 | 3e-71 | peptide methionine sulfoxide reductase, putative |
216840 | CN947326 | AT4G04955.1 | 3e-45 | ATALN Encodes an allantoinase |
219785 | CN851874 | AT2G30200.1 | 1e-148 | expressed protein T27E13_6 |
221777 | CN875931 | AT5G17570.1 | 1e-115 | tatD-related deoxyribonuclease family protein |
221885 | EB122552 | AT1G55860.1 | 2e-19 | ubiquitin-protein ligase 1 (UPL1) |
225203 | CN877466 | AT1G68370.1 | 9e-74 | gravity-responsive protein (ARG1) |
228881 | CN878128 | AT1G77930.1 | 1e-105 | DNAJ heat shock N-terminal domain-containing protein |
229438 | CN878271 | AT1G20760.1 | 2e-30 | calcium-binding EF hand family protein |
229922 | CN878558 | AT1G20110.1 | 4e-73 | zinc finger (FYVE type) family protein |
257846 | CN914471 | AT1G15240.1 | 8e-26 | phox (PX) domain-containing protein |
266842 | CN916307 | AT2G45620.1 | 4e-09 | nucleotidyltransferase family protein |
267005 | CN916212 | AT4G28000.1 | 7e-51 | AAA-type ATPase family protein |
267748 | CN918233 | AT5G41370.1 | 4e-13 | XPB1 involved in both DNA repair and transcription |
289972 | CN884487 | AT3G23610.1 | 5e-60 | dual specificity protein phosphatase (DsPTP1) |