Table 3 Top 10 up- and down-regulated annotated tags for each challenge
From: Gill transcriptome response to changes in environmental calcium in the green spotted puffer fish
| Â | Tag count | Â | Â | Â | |
|---|---|---|---|---|---|
Tag sequence1 | Control | Treatment | Fold change2 | Gene | Description |
Up-regulated by low calcium at 2 h: | |||||
TTGTTTGAGACCGATGCAGCAG | 1 | 113 | 113 | tpm1 | α tropomyosin |
ATGTCGGCTACCTGGTTGTAGG | 0 | 38 | 110 | mle3 | Myosin light chain 3, skeletal muscle isoform |
TGAAGACGAGTGGAAGGGAGGG | 0 | 33 | 96 | telt | Telethonin |
GACCTGAGGTCCAACCTGAAGC | 1 | 69 | 69 | tnni2 | Troponin I, fast skeletal muscle |
GGATTATTTTCCAAAATAAAAA | 0 | 23 | 67 | mlrs | Myosin regulatory light chain 2, skeletal muscle isoform |
AGACGGTGACCACTCTGACCCA | 0 | 20 | 58 | adt1 | ADP/ATP translocase 1 |
TTGGAGTTCTTTACTGGAATCA | 0 | 20 | 58 | actn3 | α actinin 3 |
TGGGCCGCCTTCCCCCAGATGT | 0 | 17 | 49 | mlrs | Myosin regulatory light chain 2, skeletal muscle isoform 2 |
ACGATTGTACCAGACTAAGATT | 3 | 144 | 48 | prvb | Parvalbumin β |
ATTTTAGCTATTTCTCCTTGAT | 0 | 15 | 43 | catz | Cathepsin Z |
Up-regulated by low calcium at 2 h: | |||||
TGATGGTTTCTGAAGGTGGCGC | 0 | 12 | 35 | adt2 | ADP/ATP translocase 2 |
CGCTGGTTCCAGCAGAAGTATG | 0 | 10 | 29 | rl11 | 60 S ribosomal protein L11 |
TCAAACTGTCTGTTTTCACCTG | 0 | 9 | 26 | dnli3 | DNA ligase 3 |
ACGTTCCCCATCTGCCCTATTG | 0 | 8 | 23 | ndk | Nucleoside diphosphate kinase |
TATTAATTTGGTTTGTTACCGT | 0 | 8 | 23 | entk | Enteropeptidase |
TCATACACTGGTGGATTTGGGA | 0 | 7 | 20 | rl37a | 60 S ribosomal protein L37a |
CTAGCTGGCTACCAGAGGCAGG | 0 | 7 | 20 | k1c13 | Keratin, type I cytoskeletal 13 |
GAGTTAAACAGTAGGGACAAGG | 0 | 7 | 20 | zc3hf | Zinc finger CCCH domain-containing protein 15 |
CAAACTAAAAGAATAAACCTCG | 0 | 7 | 20 | suca | Succinyl-CoA ligase [GDP-forming] subunit α, mitochondrial |
TTCACAAACAAATCAAGTGCTT | 0 | 6 | 17 | rab7a | Ras-related protein Rab-7a |
Up-regulated by high calcium at 2 h: | |||||
TCATAGCTGCTCACTAAATCCA | 0 | 69 | 200 | apoeb | Apolipoprotein Eb |
TATTAATTTGGTTTGTTACCGT | 0 | 28 | 81 | entk | Enteropeptidase |
CGCTGGTTCCAGCAGAAGTATG | 0 | 13 | 38 | rl11 | 60 S ribosomal protein L11 |
TGCTACTCTTCGTCAGACACCC | 0 | 9 | 26 | ran | GTP-binding nuclear protein Ran |
AATGAACCATAAATTGGTGCAC | 0 | 8 | 23 | arpc4 | Probable actin-related protein 2/3 complex subunit 4 |
CCGAGTTTGTCTTATTACAAAC | 0 | 7 | 20 | flcn | Folliculin |
GCATCAATGGGGTCATAATATT | 0 | 7 | 20 | pttg | Pituitary tumor-transforming gene 1 protein-interacting protein |
TCCCGCCTTCACAAGCGCATTG | 0 | 7 | 20 | s14l1 | SEC14-like protein 1 |
TTGCAGCTGATCCCTCTGATAG | 0 | 6 | 17 | nmes1 | Normal mucosa of esophagus-specific gene 1 protein |
GACTAATATAAAAGACCTTTTT | 0 | 6 | 17 | huwe1 | E3 ubiquitin-protein ligase HUWE1 (Fragment) |
Down-regulated by low calcium at 2 h: | |||||
TCATACACTGGTGGATTTGGGA | 21 | 0 | 61 | rl37a | 60 S ribosomal protein L37a |
GGATTTGGTCTCTTTGATTAAT | 15 | 0 | 43 | rla2 | 60 S acidic ribosomal protein P2 |
GTCGTGTCTGAGCTGTGTGCCT | 12 | 0 | 35 | parpt | TCDD-inducible poly [ADP-ribose] polymerase |
GACACGGACTAAAAGACACACA | 11 | 0 | 32 | psb7 | Proteasome subunit β type-7 |
GATGCTCAGAACAACAAGTTGG | 11 | 0 | 32 | frim | Ferritin, middle subunit |
CATGTATCTACGTAAAACTGAT | 8 | 0 | 23 | gima7 | GTPase IMAP family member 7 |
GAATCGCTTAGTCGGGCATTTG | 8 | 0 | 23 | ndrg1 | Protein NDRG1 |
AAGAAGGCCAAAGTTCTGATAC | 7 | 0 | 20 | agr2 | Anterior gradient protein 2 homolog |
TCCCGTGTTGTCAGAATATTAT | 7 | 0 | 20 | hm20b | SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily E member 1-related |
TTGTTCTGTTTGTAGTCACAAG | 7 | 0 | 20 | selh | Selenoprotein H |
Down-regulated by low calcium at 12 h: | |||||
TTCAGGGAACTGGTGACTGCAC | 47 | 1 | 47 | co8a1 | Collagen α1(VIII) chain |
AACAAAATCCTGCACCCTGTTT | 12 | 0 | 35 | hsp71 | Heat shock 70 kDa protein 1 |
ACCGACGTGTTCTGCGCAGGGA | 28 | 1 | 28 | ileu | Leukocyte elastase inhibitor |
CCCTTCATCACCGAGGAGCTGT | 9 | 0 | 26 | syvm | Valyl-tRNA synthetase, mitochondrial |
ACGTTTACGTCCGCAAGGTCAA | 7 | 0 | 20 | rs3a | 40 S ribosomal protein S3a |
GCGGAGCTGGGCATCACCGAGT | 7 | 0 | 20 | tcpb | T-complex protein 1 subunit β |
TTCAAAAATGGGAGGGTGGTGG | 6 | 0 | 17 | cof2 | Cofilin-2 |
TGGCCTGACAAGATTTTTGTTC | 6 | 0 | 17 | mpeg1 | Macrophage-expressed gene 1 protein |
TCCAAAATGTGAGTTCCTCTTT | 6 | 0 | 17 | tp4a1 | Protein tyrosine phosphatase type IVA 1 |
ACGAGCGCCTGATCCGGCTGGT | 6 | 0 | 17 | abcf3 | ATP-binding cassette sub-family F member 3 |
Down-regulated by high calcium at 12 h: | |||||
TTCAGGGAACTGGTGACTGCAC | 47 | 0 | 136 | co8a1 | Collagen α1 (VIII) chain |
GATGCTCAGAACAACAAGTTGG | 12 | 0 | 35 | frim | Ferritin, middle subunit |
CCCAGGGTGATGACCAGGGTGC | 9 | 0 | 26 | horn | Hornerin |
TACTGTTTTGGATTTGTAAATA | 9 | 0 | 26 | doc10 | Dedicator of cytokinesis protein 10 |
TCTGCTCTAACCTTATAATTCC | 9 | 0 | 26 | mk12 | Mitogen-activated protein kinase 12 |
TGGGCCGCCTTCCCCCCAGATG | 9 | 0 | 26 | mlrs | Myosin regulatory light chain 2, skeletal muscle isoform type 2 |
ACGTTTACGTCCGCAAGGTCAA | 7 | 0 | 20 | rs3a | 40 S ribosomal protein S3a |
AAGACACATCTACAGTGGCAGT | 7 | 0 | 20 | g3p | Glyceraldehyde-3-phosphate dehydrogenase |
ATGATGACGATGATTTCTTTGC | 7 | 0 | 20 | igll1 | Immunoglobulin lambda-like polypeptide 1 |
GCTTCTTTTATCTGAGCACTGG | 7 | 0 | 20 | snx19 | Sorting nexin-19 |