Skip to main content

Table 2 Validation results on genomic loci containing ERE-like sequences identified by sequencing random ChIP fragment from an ER ChIP library

From: Multiplatform genome-wide identification and modeling of functional human estrogen receptor binding sites

Nearest gene Genomic location Pattern Validation
NBPF4 chr1:108,492,542-108,492,560 ttaGGTCAgctTGTCCcag Binding
C1orf21 chr1:181,327,606-181,327,624 ctgGGTCAgcaTGACCttc Binding
  chr11:64,942,548-64,942,566 ctgGGGCAtgcTCACCtca Binding
SEC15L2 chr2:72,713,948-72,713,966 ggaGGTCTaggTGACCtcg Binding
  chr3:132,571,914-132,571,932 aggGGTCAtggTGACAtta Binding
SLC6A6 chr3:14,429,604-14,429,622 ctgGGTCActgTGTCCgga Binding
SIAH2 chr3:151,957,126-151,957,144 acaGGTCAccaTGACCtgg Binding
SNX24 chr5:122,216,372-122,216,390 cagGGTTAtctTAACCaac Binding
PKIB chr6:122,985,938-122,985,956 tttGGTCAtgtGGGCCtga Binding
  chr6:23,720,183-23,720,201 tcgGGTCAtgcTGCCTggg Binding
BTBD9 chr6:38,337,561-38,337,579 tggGGTCAtggTGACTcct Binding
SHB chr9:37,943,504-37,943,522 gcaGGTGGggcTGCCTcca Binding
SLC38A1 chr12:44,881,783-44,881,801 cagAGTGAactTGACCtga Binding
SLC38A1 chr12:44,881,800-44,881,818 gagGGTCAtccCAACCcca Binding
  chr16:2,781,142-2,781,160 ccaGGTCGgctTGCCCtta Binding
  chr16:743,678-743,696 atgGGTCActgTGACCcag Binding
  chr17:46,382,536-46,382,554 cccGGACAcgaTGTCCccc Binding
TEX14 chr17:54,072,183-54,072,201 cacGGTCAtggTGACCtga Binding
  chr20:54,945,262-54,945,280 gggAGACAcccTGACCtaa Binding
  chr2:222,089,422-222,089,440 cagGTTCAaaaTGACGggt Nonbinding
STK10 chr5:171,535,283-171,535,301 tgtGGTCTctgTGCCCagg Nonbinding
KIAA1191 chr5:175,712,328-175,712,346 agaGGCCAgtcTACCCtcc Nonbinding
RASGEF1C chr5:179,478,929-179,478,947 gtgGGCCGgccTGGCCtgt Nonbinding
SORCS1 chr10:108,692,194-108,692,212 cacAGTCAtgcTGACCcca Nonbinding
  chr14:38,648,346-38,648,364 attGGTCAgagTGACAgaa Nonbinding
  chr14:79,636,926-79,636,944 accTGGCAcgcTGACCcat Nonbinding
LOC57149 chr16:20,819,825-20,819,843 tggGGTCAcacAGGCCcgt Nonbinding
  chr16:25,535,373-25,535,391 ttaGTTCAcctTAACCcct Nonbinding
CEACAM6 chr19:46,954,305-46,954,323 cagGACCAgggAGACCtga Nonbinding
  1. Shown in bold and underlined are nucleotides that deviate from the consensus core ERE. ChIP, chromatin immunoprecipitation; ER, estrogen receptor; ERE, estrogen response element.