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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttcctctctttatattctcatcatcacatttttcacttatgctaatcttttgcctccatttataagGAAAATTGCTCCGACAATCTTGCTCGATGTACCATTAGATTCTCTGATCATGAGTGAAGAAATATTTGGCCCTCTCCTTCCAATCCTCACG

Basic information

species Arabidopsis thaliana
transcript AT1G44170.3
intron # 7
splice site 3'
intron type U2

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|116465911|gb|EG508503.1|EG508503
EST:     GAAGTTTCTGACAAAATTGCCTATGGTGGTGAAAAGGACAGAGAAAACTT                         GAAAATTGCTCCGACAATCTTGCTCGATGTACCATTAGATTCTCTGATCAT
genomic: GAAGTTTCTGACAAAATTGTCTATGGTGGTGAAAAGGACAGAGAAAACTTgtaagttcct ... catttataagGAAAATTGCTCCGACAATCTTGCTCGATGTACCATTAGATTCTCTGATCAT
EST: gi|86029395|gb|DR325148.1|DR325148
EST:     GAAGTTTCTGACAAAATTGTCTATGGTGGTGAAAAGGACAGAGAAAACTT                         GAAAATTGCTCCGACAATCTTGCTCGATGTACCATTAGATTCTCTGATCAT
genomic: GAAGTTTCTGACAAAATTGTCTATGGTGGTGAAAAGGACAGAGAAAACTTgtaagttcct ... catttataagGAAAATTGCTCCGACAATCTTGCTCGATGTACCATTAGATTCTCTGATCAT
EST: gi|116465913|gb|EG508505.1|EG508505
EST:     GAAGTTTCTGACAAAATTGTCTATGGTGGTGAAAAGGACAGAGAAAACTT                         GAAAATTGCTCCGACAATCTTGCTCGATGTACCATTAGATTCTCTGATCAT
genomic: GAAGTTTCTGACAAAATTGTCTATGGTGGTGAAAAGGACAGAGAAAACTTgtaagttcct ... catttataagGAAAATTGCTCCGACAATCTTGCTCGATGTACCATTAGATTCTCTGATCAT
EST: gi|164083070|gb|EL972128.1|EL972128
EST:     GAAGTTTCTGACAAAATTGTCTATGGTGGTGAAAAGGACAGAGAAAACTT                         GAAAATTGCTCCGACAATCTTGCTCGATGTACCATTAGATTCTCTGATCAT
genomic: GAAGTTTCTGACAAAATTGTCTATGGTGGTGAAAAGGACAGAGAAAACTTgtaagttcct ... catttataagGAAAATTGCTCCGACAATCTTGCTCGATGTACCATTAGATTCTCTGATCAT
EST: gi|116465916|gb|EG508508.1|EG508508
EST:     GAAGTTTCTGACAAAATTGTCTATGGTGGTGAAAAGGACAGAGAAAACTT                         GAAAATTGCTCCGACAATCTTGCTCGATGTACCATTAGATTCTCTGATCAT
genomic: GAAGTTTCTGACAAAATTGTCTATGGTGGTGAAAAGGACAGAGAAAACTTgtaagttcct ... catttataagGAAAATTGCTCCGACAATCTTGCTCGATGTACCATTAGATTCTCTGATCAT
EST: gi|116465923|gb|EG508515.1|EG508515
EST:     GAAGTTTCTGACAAAATTGTCTATGGTGGTGAAAAGGACAGAGAAAACTT                         GAAAATTGCTCCGACAATCTTGCTCGATGTACCATTAGATTCTCTGATCAT
genomic: GAAGTTTCTGACAAAATTGTCTATGGTGGTGAAAAGGACAGAGAAAACTTgtaagttcct ... catttataagGAAAATTGCTCCGACAATCTTGCTCGATGTACCATTAGATTCTCTGATCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atattctcatcatcacatttttcacttatgctaatcttttgcctccatttataagGAAAATTGCTCCGACAATCTTGCTCGATGTACCATTAGATTCTCTGATCATGAGTGAAGAAATATTTGGCCCTCTCCTTCCAATCCTCACG
                            tgctaat  putative branch site (score: 2)
                                  tcttttgcctccattt  CT-rich tract
                                              atttataa  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagttcctctctttatattctcatcatcacatttttcacttatgctaatcttttgcctccatttataagGAAAATTGCTCCGACAATCTTGCTCGATGTACCATTAGATTCTCTGATCATGAGTGAAGAAATATTTGGCCCTCTCCTTCCAATCCTCACG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA