Table 1  Exon-interrupting IES candidates
IESconMACaTTHERMbGenecReadsdMAC JunctioneExonfIES Lengthg
11823180600142380e, a1L+1RttaTTAAtgg3′194
24184682400348490e, a1L+2RttaTTAAtta5′453
36220335500586680e, a2L+3RtttTTAATTtttSinglen.d.
A9494457001101620e1L+1RtacATAatcSingle483
B1567149000569290e, a1RtcaTTAAatt3′337
C6424634500617820e3L+3RcccAAtgt3′∼1,500
D2429076500198180e, a1L+1Ratat/cctgMid∼1,200
E9558624001119380e1L+1RaaaGAttgMid∼2,000
F4210918500359230e, a1L+3RtccTttaJxn 3′n.d.
G9955150001259660a3L+1RgtcAAata5′n.d.
  • a ConMAC, approximate browser coordinate of IES.

  • b TTHERM, gene model number.

  • c Gene, evidence for gene function based on putative mRNA expression (EST and/or microarray detection) and/or predicted protein properties (protein domain annotation) indicated by “e” and/or “a” respectively.

  • d Reads, number of Sanger L and/or R reads.

  • e MAC Junction, MAC sequence following IES removal: sequence present on both sides of the IES before elimination and retained as single-copy in the MAC is indicated in upper case; a slash separates flanking sequences joined without microhomology.

  • f Exon, predicted position of the IES-containing exon within the gene model: single indicates a single-exon gene model, Mid indicates an internal exon, Jxn 3′ is the intron/exon boundary of the 3′ exon.

  • g IES Length, actual or minimum length of IES in bp: n.d. indicates size not determined. Note that it is possible that IES length is longer than detected by PCR if the IES contains internal repeat(s).