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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAGCTGATGTCAGGATGATGTGTGCCGCTGAGGTTCATCTTGGAACCAAGAATTGCAATTACCAGATGGAGCGTTACGTCTTCAAGAGACGCAACGATGgtaatttctcgtatattttttgataaactatctgtatgtatgtatgttgatggttatagtgttgagattctgtgttgatatttcggatttgtataaatgt...

Basic information

species Arabidopsis thaliana
transcript AT1G72370.2
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G72370.2 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: Vv09s0002g00610.t01 (Vitis vinifera), 5'ss of exon 1
GAAGCTGATGTCAGGATGATGTGTGCCGCTGAGGTTCATCTTGGAACCAAGAATTGCAATTACCAGATGGAGCGTTACGTCTTCAAGAGACGCAACGATGgtaattt--ctcgtatattttttgataaactatctgtatgtatgtatgttgatggttatagtgttgagattctgtgttgatatttcggatttgtataaatgt---
|||   ||  |   |||||||   ||||| |||||||| || || |||||||| || || | ||||||||| ||||||||||||||| | ||||| ||||||| | |  |||    ||| ||  ||   || |    || | |   | |    | ||   ||| |     ||| ||| ||| |   | || || ||   | |   
GAACAGGACATACAGATGATGCTCGCCGCCGAGGTTCACCTCGGTACCAAGAACTGTAACTTCCAGATGGAACGTTACGTCTTCAAGCGCCGCAATGATGgtactctatctctctcattcttcaatttcctgttgaaatct-ttcgtctcttcgattg-ggtgatttttctctttgtcgatct---gcatgtgcatttttctttc
















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|116467170|gb|EG509762.1|EG509762
EST:     GAATTGCAATTACCAGATGGAGCGTTACGTCTTCGAGAGACGCAACGATG                         GTATTTACATCTTCAACCTTGGCAAAACATGGGAAAAGCTCCAGATGGCTG
genomic: GAATTGCAATTACCAGATGGAGCGTTACGTCTTCAAGAGACGCAACGATGgtaatttctc ... tcattctcagGTATTTACATCTTCAACCTTGGCAAAACATGGGAAAAGCTCCAGATGGCTG
EST: gi|164109959|gb|ES068449.1|ES068449
EST:     GAATTGCAATTACCAGATGGAGCGTTACGTCTTCAAGAGACGCAACGATG                         GTATTTACATCTTCA
genomic: GAATTGCAATTACCAGATGGAGCGTTACGTCTTCAAGAGACGCAACGATGgtaatttctc ... tcattctcagGTATTTACATCTTCA
EST: gi|116455944|gb|EG498536.1|EG498536
EST:     GAATTGCAATTACCAGATGGAGCGTTACGTCTTCAAGAGACGCAACGATG                         GTATTTACATCTTCAACCTTGGCAAAACATGGGAAAAGCTCCAGATGGCTG
genomic: GAATTGCAATTACCAGATGGAGCGTTACGTCTTCAAGAGACGCAACGATGgtaatttctc ... tcattctcagGTATTTACATCTTCAACCTTGGCAAAACATGGGAAAAGCTCCAGATGGCTG
EST: gi|124786436|gb|EH876115.1|EH876115
EST:     AGCGTTACGTCTTCAAGAGACGCAACGATG                         GTATTTACATCTTCAACCTTGGACAAAACATAGGGAAAAGCTCCAGATGGC
genomic: AGCGTTACGTCTTCAAGAGACGCAACGATGgtaatttctc ... tcattctcagGTATTTACATCTTCAACCTTGG-CAAAACAT-GGGAAAAGCTCCAGATGGC
EST: gi|116455943|gb|EG498535.1|EG498535
EST:     GAATTGCAATTACCAGATGGAGCGTTACGTCTTCAAGAGACGCAACGATG                         GTATTTACATCTTCAACCTTGGCAAAACATGGGAAAAGCTCCAGATGGCTG
genomic: GAATTGCAATTACCAGATGGAGCGTTACGTCTTCAAGAGACGCAACGATGgtaatttctc ... tcattctcagGTATTTACATCTTCAACCTTGGCAAAACATGGGAAAAGCTCCAGATGGCTG
EST: gi|116423188|gb|EG465780.1|EG465780
EST:     GAATTGCAATTACCAGATGGAGCGTTACGTCTTCAAGAGACGCAACGATG                         GTATTTGCATCTTCAACCTTGGCAAAACATGGGAAAAGCTCCAGATGGCTG
genomic: GAATTGCAATTACCAGATGGAGCGTTACGTCTTCAAGAGACGCAACGATGgtaatttctc ... tcattctcagGTATTTACATCTTCAACCTTGGCAAAACATGGGAAAAGCTCCAGATGGCTG
EST: gi|164192969|gb|ES076002.1|ES076002
EST:     AGCGTTACGTCTTCAAGAGACGCAACGATG                         GTATTTACATCTTCAACCTTGGCAAAACATGGGAAAAGCTCCAGATGGCTG
genomic: AGCGTTACGTCTTCAAGAGACGCAACGATGgtaatttctc ... tcattctcagGTATTTACATCTTCAACCTTGGCAAAACATGGGAAAAGCTCCAGATGGCTG
EST: gi|301501781|gb|HO207321.1|HO207321
EST:     GAATTGCAATTACCAGATGGAGCGTTACGTCTTCAAGAGACGCAACGATG                         GTATTTACATCTTCAACCTTGGCAAAACATGGGAAAAGCTCCAGATGGCTG
genomic: GAATTGCAATTACCAGATGGAGCGTTACGTCTTCAAGAGACGCAACGATGgtaatttctc ... tcattctcagGTATTTACATCTTCAACCTTGGCAAAACATGGGAAAAGCTCCAGATGGCTG
EST: gi|164071576|gb|ES109912.1|ES109912
EST:     GAATTGCAATTACCAGATGGAGCGTTACGTCTTCAAGAGACGCAACGATG                         GTATTTACATCTTCAACCTTG
genomic: GAATTGCAATTACCAGATGGAGCGTTACGTCTTCAAGAGACGCAACGATGgtaatttctc ... tcattctcagGTATTTACATCTTCAACCTTG
EST: gi|124765690|gb|EH855820.1|EH855820
EST:     ATGGAGCGTTACGTCTTCAAGAGACGCAACGATG                         GTATTTACATCTTCAACCTTGGCAAAACGTGGGAAAAGCTCCAGATGGCTG
genomic: ATGGAGCGTTACGTCTTCAAGAGACGCAACGATGgtaatttctc ... tcattctcagGTATTTACATCTTCAACCTTGGCAAAACATGGGAAAAGCTCCAGATGGCTG
EST: gi|125256549|gb|EL270634.1|EL270634
EST:     ATTGCAATTACCAGATGGTAGTCGTTACGTCTTCAAGAGACGCAACGATG                         GTATTTACATCTTCAACCTTGGCAAAACATGGGAAAAGCTCCAGA
genomic: ATTGCAATTACCAGATGG-AG-CGTTACGTCTTCAAGAGACGCAACGATGgtaatttctc ... tcattctcagGTATTTACATCTTCAACCTTGGCAAAACATGGGAAAAGCTCCAGA
EST: gi|116470236|gb|EG512828.1|EG512828
EST:     GAATTGCAATTACCAGATGGAGCGTTACGTCTTCGAGAGACGCAACGATG                         GTATTTACATCTTCAACCTTGGCAAAACATGGGAAAAGCTCCAGATGGCTG
genomic: GAATTGCAATTACCAGATGGAGCGTTACGTCTTCAAGAGACGCAACGATGgtaatttctc ... tcattctcagGTATTTACATCTTCAACCTTGGCAAAACATGGGAAAAGCTCCAGATGGCTG
EST: gi|124881581|gb|EH960483.1|EH960483
EST:     ATGGAGCGTTACGTCTTCAAGAGACGCAACGATG                         GTATTTACATCTTCAACCTTGGCAAAACATGGGAAAAGCTCCAGATGGCTG
genomic: ATGGAGCGTTACGTCTTCAAGAGACGCAACGATGgtaatttctc ... tcattctcagGTATTTACATCTTCAACCTTGGCAAAACATGGGAAAAGCTCCAGATGGCTG
EST: gi|164092285|gb|ES118346.1|ES118346
EST:     GAATTGCAATTACCAGATGGAGCGTTACGTCTTCAAGAGACGCAACGATG                         GTAATTTACATCTTCAACCTTGGCAAAACATGGGAAAAGC
genomic: GAATTGCAATTACCAGATGGAGCGTTACGTCTTCAAGAGACGCAACGATGgtaatttctc ... tcattctcagGTA-TTTACATCTTCAACCTTGGCAAAACATGGGAAAAGC
EST: gi|125056265|gb|EL126060.1|EL126060
EST:     TTACCAGATGGAGCGTTACGTCTTCAAGAGACGCAACGATG                         GTATTTACATCTTCAACCTTGGCAAAACATGGGAAAAGCTCCAGATGGCTG
genomic: TTACCAGATGGAGCGTTACGTCTTCAAGAGACGCAACGATGgtaatttctc ... tcattctcagGTATTTACATCTTCAACCTTGGCAAAACATGGGAAAAGCTCCAGATGGCTG
EST: gi|125041572|gb|EL113841.1|EL113841
EST:     GAATTGCAATTACCAGATGGAGCGTTACGTCTTCAAGAGACGCAACGATG                         GTATTTACATCTTCAACCTTGGCAAAACA
genomic: GAATTGCAATTACCAGATGGAGCGTTACGTCTTCAAGAGACGCAACGATGgtaatttctc ... tcattctcagGTATTTACATCTTCAACCTTGGCAAAACA
EST: gi|164121380|gb|EL997853.1|EL997853
EST:     GTTACGTCTTCAAGAGACGCAACGATG                         GTATTTACATCTTCAACCTTGGCAAAACATGGGAAAAGCTCCAGATGGCTG
genomic: GTTACGTCTTCAAGAGACGCAACGATGgtaatttctc ... tcattctcagGTATTTACATCTTCAACCTTGGCAAAACATGGGAAAAGCTCCAGATGGCTG
EST: gi|116470237|gb|EG512829.1|EG512829
EST:     GAATTGCAATTACCAGATGGAGCGTTACGTCTTCGAGAGACGCAACGATG                         GTATTTACATCTTCAACCTTGGCAAAACATGGGAAAAGCTCCAGATGGCTG
genomic: GAATTGCAATTACCAGATGGAGCGTTACGTCTTCAAGAGACGCAACGATGgtaatttctc ... tcattctcagGTATTTACATCTTCAACCTTGGCAAAACATGGGAAAAGCTCCAGATGGCTG
EST: gi|47830956|gb|CK120640.1|CK120640
EST:     GAATTGCAATTACCAGATGGAGCGTTACGTCTTCAAGAGACGCAACGATG                         GTATTTACATCTTCAACCTTGGCAAAACATGGGAAAAGCTCCAGATGGCTG
genomic: GAATTGCAATTACCAGATGGAGCGTTACGTCTTCAAGAGACGCAACGATGgtaatttctc ... tcattctcagGTATTTACATCTTCAACCTTGGCAAAACATGGGAAAAGCTCCAGATGGCTG
EST: gi|124847331|gb|EH931768.1|EH931768
EST:     TTGCAATTACCAGATGGAGCGTTACGTCTTCAAGAGACGCAACGATG                         GTATTTACATCTTCAACCTTGGCAAAACATGGGAAAAGCTCCAGATGGCTG
genomic: TTGCAATTACCAGATGGAGCGTTACGTCTTCAAGAGACGCAACGATGgtaatttctc ... tcattctcagGTATTTACATCTTCAACCTTGGCAAAACATGGGAAAAGCTCCAGATGGCTG
EST: gi|164053399|gb|ES006673.1|ES006673
EST:     AGAGACGCAACGATG                         GTATTTACATCTTCAACCTTGGCAAAACATGGGAAAAGCTCCAGATGGCTG
genomic: AGAGACGCAACGATGgtaatttctc ... tcattctcagGTATTTACATCTTCAACCTTGGCAAAACATGGGAAAAGCTCCAGATGGCTG
EST: gi|125241052|gb|EL255137.1|EL255137
EST:     GAATTGCAATTACCAGATGGAGCGTTACGTCTTCAAGAGACGCAACGATG                         GTATTTACGTCTTCAACCTTGGCA
genomic: GAATTGCAATTACCAGATGGAGCGTTACGTCTTCAAGAGACGCAACGATGgtaatttctc ... tcattctcagGTATTTACATCTTCAACCTTGGCA
EST: gi|125033479|gb|EL105748.1|EL105748
EST:     ACGCAACGATG                         GTACTTACATCTTCAACCTTGGCAAAACATGGGAAAAGCTCCAGATGGCTG
genomic: ACGCAACGATGgtaatttctc ... tcattctcagGTATTTACATCTTCAACCTTGGCAAAACATGGGAAAAGCTCCAGATGGCTG
EST: gi|164048462|gb|ES140628.1|ES140628
EST:     GGAGCGTTACGTCTTCAAGAGACGCAACGATG                         GTATTTACATCTTCAACCTTGGCAAAACATGGGAAAAGCTCCAGATGGCTG
genomic: GGAGCGTTACGTCTTCAAGAGACGCAACGATGgtaatttctc ... tcattctcagGTATTTACATCTTCAACCTTGGCAAAACATGGGAAAAGCTCCAGATGGCTG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAAGCTGATGTCAGGATGATGTGTGCCGCTGAGGTTCATCTTGGAACCAAGAATTGCAATTACCAGATGGAGCGTTACGTCTTCAAGAGACGCAACGATGgtaatttctcgtatattttttgataaactatctgtatgtatgtatgttgatggttatagtgttgagattctgtgttgatatttcggatttgtataaatgt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA