Table 8

Identification of conserved regulatory motifs from catfish untranslated regions (UTRs)
Regulatory motifs Standard name Location (UTR) Number of UTRs
IRE Iron Responsive Element 5' and 3’ 13
IRES Internal Ribosome Entry Site 5' 2,491
SXL_BS SXL binding site 5' and 3’ 1,469
TOP Terminal Oligopyrimidine Tract 5' 265
UNR-bs UNR binding site 5' and 3’ 907
uORF Upstream Open Reading Frame 5' 5,492
15-LOX-DICE 15-Lipoxygenase Differentiation Control Element 3' 2
ADH_DRE Alcohol dehydrogenase 3'UTR downregulation control element 3' 91
ARE2 AU-rich class-2 Element 3' 82
BRD-BOX Brd-Box 3' 578
BRE Bruno 3'UTR responsive element 3' 28
CPE Cytoplasmic polyadenylation element 3' 180
G3A Elastin G3A 3'UTR stability motif 3' 2
GLUT1 Glusose transporter type-1 3'UTR cis-acting element 3' 2
GY-BOX GY-Box 3' 232
INS_SCE Insulin 3'UTR stability element 3' 1
K-BOX K-Box 3' 919
MBE Musashi binding element 3' 3,546
SECIS1 Selenocysteine Insertion Sequence - type 1 3' 42
SECIS2 Selenocysteine Insertion Sequence - type 2 3' 36
TGE TGE translational regulation element 3' 5

Catfish conserved regulatory motifs were identified by comparison with experimentally validated regulatory motifs deposited in UTRsite database using pattern search program UTRscan. Number of UTRs denotes the number of catfish UTRs from which the corresponding regulatory motifs were identified.

Liu et al.

Liu et al. BMC Genomics 2012 13:595   doi:10.1186/1471-2164-13-595

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