Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTTTCTAAGCCTGCAAAAGAGGACATCTTTTTTCCTTCTTTATCACCAAATCTGCAAAAGGAAAGGCCTAAGCTTGATCTTCCTAAGTTAGCCAATTTAGgtacgaatacaaatataggtgtattccactccaataacactacttttctagtcctattataacctgatacttttcttagagaacttaatgatttctgtag...

Basic information

species Arabidopsis thaliana
transcript AT1G06460.1
intron # 4
splice site 5'
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|125287558|gb|EL301643.1|EL301643
EST:     CTGCAAAAGGAAAGGCCTAAGCTTGATCTTCCTTAAGTTAGCCAATTTAG                         GTACTGTTTGGTCTCCCAGATCGAATGTTGCTGAATCGACA
genomic: CTGCAAAAGGAAAGGCCTAAGCTTGATCTTCC-TAAGTTAGCCAATTTAGgtacgaatac ... ccttttgcagGTACTGTTTGGTCTCCCAGATCGAATGTTGCTGAATCGACA
EST: gi|124931953|gb|EL009262.1|EL009262
EST:     TCTGCAAAAGGAAAGGCCTAAGCTTGATCTTCCTAAGTTAGCCAATTTAG                         GTACTGTTTGGT
genomic: TCTGCAAAAGGAAAGGCCTAAGCTTGATCTTCCTAAGTTAGCCAATTTAGgtacgaatac ... ccttttgcagGTACTGTTTGGT
EST: gi|86077661|gb|DR373418.1|DR373418
EST:     GCCTAAGCTTGATCTTCCTAAGTTAGCCAATTTAG                         GTACTGTTTGGTCTCCCAGATCGAATGTTGCTGAATCGACACACAGCTATG
genomic: GCCTAAGCTTGATCTTCCTAAGTTAGCCAATTTAGgtacgaatac ... ccttttgcagGTACTGTTTGGTCTCCCAGATCGAATGTTGCTGAATCGACACACAGCTATG
EST: gi|86084351|gb|DR380110.1|DR380110
EST:     TCTGCAAAAGGAAAGGCCTAAGCTTGATCTTCCTAAGTTAGCCAATTTAG                         GTACTGTTTGGTCTCCCAGATCGAATGTTGCTGAATCGACACACAGCTATG
genomic: TCTGCAAAAGGAAAGGCCTAAGCTTGATCTTCCTAAGTTAGCCAATTTAGgtacgaatac ... ccttttgcagGTACTGTTTGGTCTCCCAGATCGAATGTTGCTGAATCGACACACAGCTATG
EST: gi|124807728|gb|EH894132.1|EH894132
EST:     AGTTAGCCAATTTAG                         GTACTGTTTGGTCTCCCAGATCGAATGTTGCTGAATCGACACACAGCTATG
genomic: AGTTAGCCAATTTAGgtacgaatac ... ccttttgcagGTACTGTTTGGTCTCCCAGATCGAATGTTGCTGAATCGACACACAGCTATG
EST: gi|124925855|gb|EL003783.1|EL003783
EST:     CTAAGTTAGCCAATTTAG                         GTACTGTTTGGTCTCCCAGATCGAATGTTGCTGAATCGACACACAGCTATG
genomic: CTAAGTTAGCCAATTTAGgtacgaatac ... ccttttgcagGTACTGTTTGGTCTCCCAGATCGAATGTTGCTGAATCGACACACAGCTATG
EST: gi|124740372|gb|EH831534.1|EH831534
EST:     TCTGCAAAAGGAAAGGCCTAAGCTTGATCTTCCTAAGTTAGCCAATTTAG                         GTACTGTTTGGTCT
genomic: TCTGCAAAAGGAAAGGCCTAAGCTTGATCTTCCTAAGTTAGCCAATTTAGgtacgaatac ... ccttttgcagGTACTGTTTGGTCT
EST: gi|124759610|gb|EH849740.1|EH849740
EST:     TCTGCAAAAGGAAAGGCCTAAGCTTGATCTTCCTAAGTTAGCCAATTTAG                         GTACTGTTTGGTCTCCCAGA
genomic: TCTGCAAAAGGAAAGGCCTAAGCTTGATCTTCCTAAGTTAGCCAATTTAGgtacgaatac ... ccttttgcagGTACTGTTTGGTCTCCCAGA
EST: gi|124838927|gb|EH923366.1|EH923366
EST:     TCTGCAAAAGGAAAGGCCTAAGCTTGATCTTCCTAAGTTAGCCAATTTAG                         GTACTGTTTGGTCTCCCAGATCGAATGTTGCTGAATCGACACACAGCTA
genomic: TCTGCAAAAGGAAAGGCCTAAGCTTGATCTTCCTAAGTTAGCCAATTTAGgtacgaatac ... ccttttgcagGTACTGTTTGGTCTCCCAGATCGAATGTTGCTGAATCGACACACAGCTA
EST: gi|86086217|gb|DR381976.1|DR381976
EST:     TCTGCAAAAGGAAAGGCCTAAGCTTGATCTTCCTAAGTTAGCCAATTTAG                         GTACTGTTTGGTCTCCCAGATCGAATGTTGCTGAATCGACACACAGCTATG
genomic: TCTGCAAAAGGAAAGGCCTAAGCTTGATCTTCCTAAGTTAGCCAATTTAGgtacgaatac ... ccttttgcagGTACTGTTTGGTCTCCCAGATCGAATGTTGCTGAATCGACACACAGCTATG
EST: gi|47831960|gb|CK121644.1|CK121644
EST:     TCTGCAAAAGGAAAGGCCTAAGCTTGATCTTCCTAAGTTAGCCAATTTAG                         GTACTGTTTGGTCTCCCAGATCGAATGTTGCTGAATCGACACACAGCTATG
genomic: TCTGCAAAAGGAAAGGCCTAAGCTTGATCTTCCTAAGTTAGCCAATTTAGgtacgaatac ... ccttttgcagGTACTGTTTGGTCTCCCAGATCGAATGTTGCTGAATCGACACACAGCTATG
EST: gi|124798349|gb|EH888028.1|EH888028
EST:     CTGCAAAAGGAAAGGCCTAAGTCTTGATCTTCCTAAGTTAGCCAATTTAG                         GTACTGTTTGGTCTCCCAGATCGAATGTTGCTGAATCGACACACAG
genomic: CTGCAAAAGGAAAGGCCTAAG-CTTGATCTTCCTAAGTTAGCCAATTTAGgtacgaatac ... ccttttgcagGTACTGTTTGGTCTCCCAGATCGAATGTTGCTGAATCGACACACAG
EST: gi|47830420|gb|CK120104.1|CK120104
EST:     TCTGCAAAAGGAAAGGCCTAAGCTTGATCTTCCTAAGTTAGCCAATTTAG                         GTACTGTTTGGTCTCCCAGATCGAATGTTGCTGAATCGACACACAGCTATG
genomic: TCTGCAAAAGGAAAGGCCTAAGCTTGATCTTCCTAAGTTAGCCAATTTAGgtacgaatac ... ccttttgcagGTACTGTTTGGTCTCCCAGATCGAATGTTGCTGAATCGACACACAGCTATG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTTTCTAAGCCTGCAAAAGAGGACATCTTTTTTCCTTCTTTATCACCAAATCTGCAAAAGGAAAGGCCTAAGCTTGATCTTCCTAAGTTAGCCAATTTAGgtacgaatacaaatataggtgtattccactccaataacactacttttctagtcctattataacctgatacttttcttagagaacttaatgatttctgtag

- - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aatacaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttccactc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caataaca