RIKEN full-length enriched, 3 days neonate thymus

Library Description

Organism:	Mus musculus
Developmental stage:	3 days neonate
Tissue:	thymus
Cloning site 1:	SalI
Cloning site 2:	BamHI
Lab host:	DH10B

cDNA library was prepared and sequenced in Mouse Genome Encyclopedia Project of Genome Exploration Research Group in Riken Genomic Sciences Center and Genome Science Laboratory in RIKEN. Division of Experimental Animal Research in Riken contributed to prepare mouse tissues. 1st strand cDNA was primed with a primer [5' GAGAGAGAGAAGGATCCAAGAGCTCTTTTTTTTTTTTTTTTVN 3'], cDNA was prepared by using trehalose thermo-activated reverse transcriptase and subsequently enriched for full-length by cap-trapper. cDNA went through one round of normalization to Rot = 20.0 and subtraction to Rot = 459.0. Second strand cDNA was prepared with the primer adapter of sequence [5' GAGAGAGAGATTCTCGAGTTAATTAAATTAATCCCCCCCCCCCCC 3']. cDNA was cleaved with XhoI and BamHI. Vector: a modified pBluescript KS(+) after bulk excision from Lambda FLC I.

Source: Yoshihide Hayashizaki, The Institute of Physical and Chemical Research (RIKEN)

Gene Content Analysis

10,888 ESTs from this library were grouped into 4,846 UniGene entries (putative genes) [UniGene build #177, 29-Nov-2008]. EST counts for each entry may be used to calculate an approximate expression level in transcripts per million (TPM).

ESTs	TPM	UniGene Entry
40	3674	Mm.35850	CDNA clone IMAGE:3465372.
26	2388	Mm.21873	MmCdt1 mRNA for Cdt1 homolog.
25	2296	Mm.255116	Multiple inositol polyphosphate histidine phosphatase 1, mRNA (cDNA clone MGC:29059 IMAGE:5039704).
20	1837	Mm.207996	Transporter 1, ATP-binding cassette, sub-family B (MDR/TAP), mRNA (cDNA clone MGC:6181 IMAGE:3257734).
18	1653	Mm.3825	Interleukin 7 (Il7), mRNA.
18	1653	Mm.215641	N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase, mRNA (cDNA clone MGC:49786 IMAGE:4951805).
17	1561	Mm.311655	Special AT-rich sequence binding protein 1, mRNA (cDNA clone MGC:18461 IMAGE:4164993).
16	1470	Mm.28492	DNA segment, Chr 2, ERATO Doi 391, expressed, mRNA (cDNA clone MGC:38807 IMAGE:5359944).
16	1470	Mm.100116	ZXD family zinc finger C, mRNA (cDNA clone MGC:7160 IMAGE:3256958).
15	1378	Mm.39001	CDNA clone IMAGE:40094516.
15	1378	Mm.38816	WD repeat domain 36, mRNA (cDNA clone IMAGE:5068765).
15	1378	Mm.332474	G-rich RNA sequence binding factor 1 (Grsf1), transcript variant 2, mRNA.
15	1378	Mm.330424	COMM domain containing 9 (Commd9), mRNA.
15	1378	Mm.255003	CD28 antigen (Cd28), mRNA.
15	1378	Mm.16549	Polymerase (DNA directed), delta 1, catalytic subunit, mRNA (cDNA clone MGC:6109 IMAGE:3257174).
14	1286	Mm.243323	Docking protein 2, mRNA (cDNA clone MGC:8067 IMAGE:3587682).
13	1194	Mm.74982	Cell cycle related kinase, mRNA (cDNA clone MGC:38901 IMAGE:5362198).
13	1194	Mm.390685	Guanosine monophosphate reductase 2, mRNA (cDNA clone MGC:36203 IMAGE:5149353).
13	1194	Mm.386884	CDK5 and Abl enzyme substrate 2 (Cables2), mRNA.
13	1194	Mm.34659	Sphingomyelin phosphodiesterase 4, mRNA (cDNA clone MGC:30316 IMAGE:5137008).
13	1194	Mm.28626	TM2 domain containing 2 (Tm2d2), mRNA.
13	1194	Mm.275574	Deltex 2 homolog (Drosophila), mRNA (cDNA clone MGC:28081 IMAGE:3711019).
12	1102	Mm.477515	Expressed sequence AI467606, mRNA (cDNA clone MGC:48192 IMAGE:1513939).
12	1102	Mm.46612	Receptor-interacting serine-threonine kinase 3, mRNA (cDNA clone MGC:35896 IMAGE:3590770).
12	1102	Mm.440465	CDNA clone IMAGE:9093221.
12	1102	Mm.33808	UDP-N-acetyl-alpha-D-galactosamine:polypeptide N-acetylgalactosaminyltransferase 2, mRNA (cDNA clone IMAGE:5345386).
12	1102	Mm.259751	Chloride channel 3 (Clcn3), transcript variant a, mRNA.
12	1102	Mm.25298	Elongation protein 2 homolog (S. cerevisiae), mRNA (cDNA clone MGC:18889 IMAGE:4239056).
12	1102	Mm.248237	COX15 homolog, cytochrome c oxidase assembly protein (yeast) (Cox15), nuclear gene encoding mitochondrial protein, mRNA.
12	1102	Mm.246713	Integrator complex subunit 8, mRNA (cDNA clone IMAGE:6415127).
12	1102	Mm.235081	BH3 interacting domain death agonist, mRNA (cDNA clone MGC:5921 IMAGE:3486537).
12	1102	Mm.21062	NMD3 homolog (S. cerevisiae) (Nmd3), mRNA.
11	1010	Mm.34411	Pyruvate dehydrogenase kinase, isoenzyme 1, mRNA (cDNA clone MGC:28719 IMAGE:4458562).
11	1010	Mm.319006	RIKEN cDNA A630038E17 gene, mRNA (cDNA clone IMAGE:4168121).
11	1010	Mm.296008	CDNA sequence BC023814 (BC023814), mRNA.
11	1010	Mm.244190	Tripartite motif protein TRIM23.
11	1010	Mm.212742	ST3 beta-galactoside alpha-2,3-sialyltransferase 6, mRNA (cDNA clone IMAGE:1329116).
10	918	Mm.9852	Apg12.
10	918	Mm.4345	Tyrosine kinase with immunoglobulin-like and EGF-like domains 1 (Tie1), mRNA.
10	918	Mm.391560	Amyloid beta (A4) precursor protein-binding, family A, member 3, mRNA (cDNA clone MGC:7481 IMAGE:3490710).
10	918	Mm.389	Interleukin 7 receptor alpha chain (Il7ra).
10	918	Mm.37801	Shc binding protein (mPAL).
10	918	Mm.28172	AML-1 regulated transmembrane protein Art-1.
10	918	Mm.272551	CCR4-NOT transcription complex, subunit 7, mRNA (cDNA clone MGC:6050 IMAGE:3590764).
10	918	Mm.259318	Retinoic acid receptor, beta, mRNA (cDNA clone MGC:100104 IMAGE:30608242).
10	918	Mm.258568	YrdC domain containing (E.coli) (Yrdc), mRNA.
10	918	Mm.256845	Vezatin isoform 0.8 (Vezt) mRNA, complete cds, alternatively spliced.
10	918	Mm.247676	Hydroxymethylbilane synthase, mRNA (cDNA clone MGC:6604 IMAGE:3487642).
10	918	Mm.216107	A kinase (PRKA) anchor protein 13 (Akap13), mRNA.
10	918	Mm.196345	Sialic acid acetylesterase, mRNA (cDNA clone MGC:5965 IMAGE:3592286).
10	918	Mm.101368	Acid phosphatase 6, lysophosphatidic (Acp6), mRNA.
9	827	Mm.5012	SH3-domain binding protein 2, mRNA (cDNA clone MGC:11535 IMAGE:3967543).
9	827	Mm.472711	Ring finger protein 26 (Rnf26), mRNA.
9	827	Mm.439784	AT rich interactive domain 4B (RBP1-like), mRNA (cDNA clone MGC:169407 IMAGE:8860802).
9	827	Mm.439744	Retinoic acid receptor, alpha, mRNA (cDNA clone MGC:6163 IMAGE:3498142).
9	827	Mm.4054	Thromboxane A synthase 1, platelet, mRNA (cDNA clone MGC:32210 IMAGE:5007629).
9	827	Mm.396147	Transcribed locus, strongly similar to NP_997871.1 Vasopressin-activated calcium-mobilizing receptor (VACM-1) [Danio rerio].
9	827	Mm.391337	Acyl-CoA synthetase long-chain family member 4, mRNA (cDNA clone MGC:5674 IMAGE:3157957).
9	827	Mm.3830	Folylpolyglutamyl synthetase, mRNA (cDNA clone MGC:7296 IMAGE:3485401).
9	827	Mm.35287	Interleukin 2 receptor, beta chain, mRNA (cDNA clone MGC:18554 IMAGE:4015306).
9	827	Mm.342177	Immunoglobulin heavy constant gamma 1 (G1m marker), mRNA (cDNA clone MGC:28019 IMAGE:3660622).
9	827	Mm.331547	Aconitase 1, mRNA (cDNA clone MGC:6247 IMAGE:3494686).
9	827	Mm.329560	Nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 1 (Nfatc1), transcript variant 1, mRNA.
9	827	Mm.323595	Transducer of ERBB2, 2, mRNA (cDNA clone MGC:18667 IMAGE:4194136).
9	827	Mm.29346	TRF1-interacting protein TIN2 (Tinf2).
9	827	Mm.288641	Component of oligomeric golgi complex 8 (Cog8), mRNA.
9	827	Mm.284433	Solute carrier family 46, member 2 (Slc46a2), mRNA.
9	827	Mm.283339	PRP39 pre-mRNA processing factor 39 homolog (yeast), mRNA (cDNA clone IMAGE:4951324).
9	827	Mm.281379	Caspase 6, mRNA (cDNA clone MGC:5873 IMAGE:3491126).
9	827	Mm.28017	F-box and WD-40 domain protein 11 (Fbxw11), mRNA.
9	827	Mm.275279	Brain cDNA, clone MNCb-1275, similar to Mus musculus F-box protein containing leucine repeats 6 (Fbl6), mRNA.
9	827	Mm.274232	Swi/SNF related matrix associated, actin dependent regulator of chromatin, subfamily a-like 1, mRNA (cDNA clone MGC:25752 IMAGE:3992325).
9	827	Mm.271937	Ribosomal protein S6 kinase, polypeptide 2, mRNA (cDNA clone IMAGE:3597884).
9	827	Mm.2679	Angiotensin II receptor, type 2, mRNA (cDNA clone MGC:6108 IMAGE:3497420).
9	827	Mm.258908	Friend leukemia integration 1 (Fli1), mRNA.
9	827	Mm.22716	Solute carrier family 43, member 1 (Slc43a1), transcript variant 3, mRNA.
9	827	Mm.22374	Glucosamine-6-phosphate deaminase 1 (Gnpda1), mRNA.
9	827	Mm.219449	MKIAA0547 protein.
9	827	Mm.20938	E74-like factor 1 (Elf1), mRNA.
9	827	Mm.14814	Transporter 2, ATP-binding cassette, sub-family B (MDR/TAP), mRNA (cDNA clone MGC:11732 IMAGE:3968225).
9	827	Mm.12553	Replication factor C (activator 1) 3, mRNA (cDNA clone MGC:25594 IMAGE:4015134).
8	735	Mm.89828	Tocopherol (alpha) transfer protein-like (Ttpal), transcript variant 1, mRNA.
8	735	Mm.7271	Nuclear RNA export factor 1 homolog (S. cerevisiae), mRNA (cDNA clone MGC:11583 IMAGE:3710546).
8	735	Mm.5856	Negative regulator of ubiquitin-like proteins 1, mRNA (cDNA clone MGC:46863 IMAGE:4018648).
8	735	Mm.477521	Donson protein (Donson).
8	735	Mm.476916	Spleen TagL-epsilon (Pglyrpl) mRNA, complete cds; alternatively spliced.
8	735	Mm.474570	Transcribed locus.
8	735	Mm.4658	P-cadherin.
8	735	Mm.441135	Transmembrane protein 68 (Tmem68), mRNA.
8	735	Mm.440686	RIKEN cDNA 2410005O16 gene, mRNA (cDNA clone MGC:35752 IMAGE:4023319).
8	735	Mm.439940	Fucosidase, alpha-L- 1, tissue (Fuca1), mRNA.
8	735	Mm.389903	Non-catalytic region of tyrosine kinase adaptor protein 2, mRNA (cDNA clone MGC:7093 IMAGE:3157491).
8	735	Mm.389260	Surfeit gene 2 (Surf2), mRNA.
8	735	Mm.37486	Tyrosyl-tRNA synthetase 2 (mitochondrial) (Yars2), nuclear gene encoding mitochondrial protein, mRNA.
8	735	Mm.36769	Sarcolemma associated protein, mRNA (cDNA clone MGC:29389 IMAGE:5064534).
8	735	Mm.35628	Fucosyltransferase 8, mRNA (cDNA clone MGC:11418 IMAGE:3594582).
8	735	Mm.330731	Transglutaminase 2, C polypeptide, mRNA (cDNA clone MGC:6152 IMAGE:3256943).
8	735	Mm.325643	Protein tyrosine phosphatase, non-receptor type 9 (Ptpn9), mRNA.
8	735	Mm.319847	Leucine rich repeat containing 8 family, member C, mRNA (cDNA clone MGC:36625 IMAGE:5353064).
8	735	Mm.314056	Tripartite motif-containing 27, mRNA (cDNA clone MGC:5991 IMAGE:3482042).