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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagaatcagcataatcgttacttagaaagaaaaaaacaatatctttttgagcactagaaagctctctctctctctctgagtttgtgctttttataatcccagAACAGGAACCTTCAATTATGACAACAAGTACAGAGGAGTTTCGTCTAGGTCTATTGCTAAACTTAAGGAAGATTCAGAGATTGATAAAGATGGATTCTTG

Basic information

species Arabidopsis thaliana
transcript AT2G17695.1
intron # 1
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|86061786|gb|DR357543.1|DR357543
EST:     TTGAGTTGGGGCCGTCCATCTTCCGAGCAACAGCAACAAGTAATCAACAA                         AACAGGAACCTTCAATTATGACAACAAGTACAGAGGAGTTTCGTCTAGGTC
genomic: TTGAGTTGGGGCCGTCCATCTTCCGAGCAACAGCAACAAGTCATCAACAAgtaagaatca ... ataatcccagAACAGGAACCTTCAATTATGACAACAAGTACAGAGGAGTTTCGTCTAGGTC
EST: gi|86086361|gb|DR382120.1|DR382120
EST:     AAGTAATCACCAA                         AACAGGAACCTTCAATTATGACAACAAGTACAGAGGAGTTTCGTCTAGGTC
genomic: AAGTCATCAACAAgtaagaatca ... ataatcccagAACAGGAACCTTCAATTATGACAACAAGTACAGAGGAGTTTCGTCTAGGTC
EST: gi|19878362|gb|AU239193.1|AU239193
EST:     TTGAGTTGGGGCCGTCCATCTTCCGAGCAACAGCAACAAGTCATCAACAA                         AACAGGAACCTTCAATTATGACAACAAGTACAGAGGAGTTTCGTCTAGGTC
genomic: TTGAGTTGGGGCCGTCCATCTTCCGAGCAACAGCAACAAGTCATCAACAAgtaagaatca ... ataatcccagAACAGGAACCTTCAATTATGACAACAAGTACAGAGGAGTTTCGTCTAGGTC
EST: gi|86061618|gb|DR357375.1|DR357375
EST:     TTGAGTTGGGGCCGTCCATCTTCCGAGCAACAGCAACAAGTAATCAACAA                         AACAGGAACCTTCAATTATGACAACAAGTACAGAGGAGTTTCGTCTAGGTC
genomic: TTGAGTTGGGGCCGTCCATCTTCCGAGCAACAGCAACAAGTCATCAACAAgtaagaatca ... ataatcccagAACAGGAACCTTCAATTATGACAACAAGTACAGAGGAGTTTCGTCTAGGTC
EST: gi|86061787|gb|DR357544.1|DR357544
EST:     TTGAGTTGGGGCCGTCCATCTTCCGAGCAACAGCAACAAGTAATCAACAA                         AACAGGAACCTTCAATTATGACAACAAGTACAGAGGAGTTTCGTCTAGGTC
genomic: TTGAGTTGGGGCCGTCCATCTTCCGAGCAACAGCAACAAGTCATCAACAAgtaagaatca ... ataatcccagAACAGGAACCTTCAATTATGACAACAAGTACAGAGGAGTTTCGTCTAGGTC
EST: gi|86084935|gb|DR380694.1|DR380694
EST:     ACAAGTAATCAACAA                         AACAGGAACCTTCAATTATGACWACAAGTACAGAGGAGTTTCGTCTAGGTC
genomic: ACAAGTCATCAACAAgtaagaatca ... ataatcccagAACAGGAACCTTCAATTATGACAACAAGTACAGAGGAGTTTCGTCTAGGTC
EST: gi|86061788|gb|DR357545.1|DR357545
EST:     TTGAGTTGGGGCCGTCCATCTTCCGAGCAACAGCAACAAGTAATCAACAA                         AACAGGAACCTTCAATTATGACAACAAGTACAGAGGAGTTTCGTCTAGGTC
genomic: TTGAGTTGGGGCCGTCCATCTTCCGAGCAACAGCAACAAGTCATCAACAAgtaagaatca ... ataatcccagAACAGGAACCTTCAATTATGACAACAAGTACAGAGGAGTTTCGTCTAGGTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgagcactagaaagctctctctctctctctgagtttgtgctttttataatcccagAACAGGAACCTTCAATTATGACAACAAGTACAGAGGAGTTTCGTCTAGGTCTATTGCTAAACTTAAGGAAGATTCAGAGATTGATAAAGATGGATTCTTG
                                       ctttttat  CT-rich tract
                                        tttttataat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagaatcagcataatcgttacttagaaagaaaaaaacaatatctttttgagcactagaaagctctctctctctctctgagtttgtgctttttataatcccagAACAGGAACCTTCAATTATGACAACAAGTACAGAGGAGTTTCGTCTAGGTCTATTGCTAAACTTAAGGAAGATTCAGAGATTGATAAAGATGGATTCTTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA