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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACTTATGAATGCATACTGTGATCGTCAATCTGTAGATTTTAACTCAATTGCTTTCTTGTTTGATGGAAGGAGACTCCGAGCTGAACAGACCCCTGATGAGgtaaatttggtttgttcaagccttgtacaaactcaagtttcatcttttaattgctgcaaagtacaattctgttactatgcctatagtttggtagaattat...

Basic information

species Glycine max
transcript GLYMA08G46500.2
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G46500.2 (Glycine max), 5'ss of exon 2
lower sequence: AT4G26840.1 (Arabidopsis thaliana), 5'ss of exon 2
ACTTATGAATGCATACTGTGATCGTCAATCTGTAGATTTTAACTCAATTGCTTTCTTGTTTGATGGAAGGAGACTCCGAGCTGAACAGACCCCTGATGAGgta-aatttggtttgttcaagccttgtacaaactcaagtttc--atcttttaattgctgcaaagtacaattct-gttactatgcctatagtttggtagaattat
 || |||||||| |||||||| || |||||||| ||  | ||||| ||||||||||||||||||||  |  | || || ||||| || || || ||||||||| ||  |   || | || || || |     || |  |||   |  || || || |||  |   | |||||| |  ||||                       
GCTGATGAATGCTTACTGTGACCGGCAATCTGTGGACATGAACTCCATTGCTTTCTTGTTTGATGGGCGTCGTCTTCGTGCTGAGCAAACTCCCGATGAGgtataacattcattctacatgctttattt---cttaccttttgaagtttatagtttctgatactaataattcttgacactacag--------------------

upper sequence: GLYMA08G46500.2 (Glycine max), 5'ss of exon 2
lower sequence: AT5G55160.2 (Arabidopsis thaliana), 5'ss of exon 3
ACTTATGAATGCATACTGTGATCGTCAATCTGTAGATTTTAACTCAATTGCTTTCTTGTTTGATGGAAGGAGACTCCGAGCTGAACAGACCCCTGATGAGgtaaatttggtttgttcaagccttgtacaaactcaagtttcatcttttaattgctgcaaagtacaattctgttactatg--cctatagtttggtagaattat
||| |||||||| |||||||| ||||| ||||| ||||| ||||||||||||||||||||||||||  |  | || || || || ||||| || ||||||||||  |   | | |  |  || |   |     |   ||||   |||| |  | || |   |    |||  | ||   |   ||  | |||   ||      
ACTGATGAATGCTTACTGTGACCGTCAGTCTGTGGATTTCAACTCAATTGCTTTCTTGTTTGATGGTCGTCGTCTTCGTGCCGAGCAGACTCCAGATGAGgtaacatcactctctgtaccccattctcttttactgttttccgtttttcaaagttgtatgat----ttccttaaccgagaatcttcaattttacag------

upper sequence: GLYMA08G46500.2 (Glycine max), 5'ss of exon 2
lower sequence: Vv12s0059g01310.t01 (Vitis vinifera), 5'ss of exon 2
ACTTATGAATGCATACTGTGATCGTCAATCTGTAGATTTTAACTCAATTGCTTTCTTGTTTGATGGAAGGAGACTCCGAGCTGAACAGACCCCTGATGAGgtaaatttggtttgttcaagccttgtaca-aactcaagtttcatcttttaattgctgcaaagtacaattctgttactatgcctatagtttggtagaattat
 || |||||||| || ||||| || |||||||||||  | ||||| ||||| ||||||||||||||  |  | ||||| |  ||||| |||||||||||||||  | |   |  ||  |  ||| | |   | |     | ||       |||||    | |    || || |||   | ||| | | ||   ||      
GCTCATGAATGCTTATTGTGACCGACAATCTGTAGACCTCAACTCGATTGCATTCTTGTTTGATGGTCGTCGTCTCCGGGGAGAACAAACCCCTGATGAGgta--tctctctcattttaatcttatccttgagttggaatccaatgccccattgcctggatgcctgatgcttttatctttccttt-gcttcacag------

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|209705640|gb|BW673597.1|BW673597
EST:     CTTTCTTGTTTGATGGAAGGAGACTCCGAGCTGAACAGACCCCTGATGAG                         CTAGAGATGGAGGATGGTGATGAGATAGATGCAATGCTGCACCAAACCGGA
genomic: CTTTCTTGTTTGATGGAAGGAGACTCCGAGCTGAACAGACCCCTGATGAGgtaaatttgg ... ttttgtgcagCTAGAGATGGAGGATGGTGATGAGATAGATGCAATGCTGCACCAAACCGGA
EST: gi|298185549|gb|HO030762.1|HO030762
EST:     CTTTCTTGTTTGATGGAAGGAGACTCCGAGCTGAACAGACCCCTGATGAG                         CTAGAGATGGAGGATGGTGATGAGATAAATGCAATGCTGCACCAAACCGGA
genomic: CTTTCTTGTTTGATGGAAGGAGACTCCGAGCTGAACAGACCCCTGATGAGgtaaatttgg ... ttttgtgcagCTAGAGATGGAGGATGGTGATGAGATAGATGCAATGCTGCACCAAACCGGA
EST: gi|151401582|gb|EV271396.1|EV271396
EST:     CTTTCTTGTTTGATGGAAGGAGACTCCGAGCTGAACAGACCCCTGATGAG                         CTAGAGATGGAGGATGGTGATGAGATAGATGCAATGCTGCACCAAACCGGA
genomic: CTTTCTTGTTTGATGGAAGGAGACTCCGAGCTGAACAGACCCCTGATGAGgtaaatttgg ... ttttgtgcagCTAGAGATGGAGGATGGTGATGAGATAGATGCAATGCTGCACCAAACCGGA
EST: gi|209720563|gb|BW675035.1|BW675035
EST:     CTTTCTTGTTTGATGGAAGGAGACTCCGAGCTGAACAGACCCCTGATGAG                         CTAGAGATGGAGGATGGTGATGAGATAGATGCAATGCTGCACCAAACCGGA
genomic: CTTTCTTGTTTGATGGAAGGAGACTCCGAGCTGAACAGACCCCTGATGAGgtaaatttgg ... ttttgtgcagCTAGAGATGGAGGATGGTGATGAGATAGATGCAATGCTGCACCAAACCGGA
EST: gi|213606787|gb|DB974320.1|DB974320
EST:     CTTTCTTGTTTGATGGAAGGAGACTCCGAGCTGAACAGACCCCTGATGAG                         CTAGAGATGGAGGATGGTGATGAGATAGATGCAATGCTGCACCAAACCGGA
genomic: CTTTCTTGTTTGATGGAAGGAGACTCCGAGCTGAACAGACCCCTGATGAGgtaaatttgg ... ttttgtgcagCTAGAGATGGAGGATGGTGATGAGATAGATGCAATGCTGCACCAAACCGGA
EST: gi|192314400|gb|FK008398.1|FK008398
EST:     CTTTCTTGTTTGATGGAAGGAGACTCCGAGCTGAACAGACCCCTGATGAG                         CTAGAGATGGAGGATGGTGATGAGATAGATGCAATGCTGCACCAAACCGGA
genomic: CTTTCTTGTTTGATGGAAGGAGACTCCGAGCTGAACAGACCCCTGATGAGgtaaatttgg ... ttttgtgcagCTAGAGATGGAGGATGGTGATGAGATAGATGCAATGCTGCACCAAACCGGA
EST: gi|254332811|gb|GR850061.1|GR850061
EST:     CTTTCTTGTTTGATGGAAGGAGACTCCGAGCTGAACAGACCCCTGATGAG                         CTAGAGATGGAGGATGGTGATGAGATAGATGCAATGCTGCACCAAACCGGA
genomic: CTTTCTTGTTTGATGGAAGGAGACTCCGAGCTGAACAGACCCCTGATGAGgtaaatttgg ... ttttgtgcagCTAGAGATGGAGGATGGTGATGAGATAGATGCAATGCTGCACCAAACCGGA
EST: gi|209720562|gb|BW675034.1|BW675034
EST:     CTTTCTTGTTTGATGGAAGGAGACTCCGAGCTGAACAGACCCCTGATGAG                         CTAGAGATGGAGGATGGTGATGAGATAGATGCAATGCTGCACCAAACCGGA
genomic: CTTTCTTGTTTGATGGAAGGAGACTCCGAGCTGAACAGACCCCTGATGAGgtaaatttgg ... ttttgtgcagCTAGAGATGGAGGATGGTGATGAGATAGATGCAATGCTGCACCAAACCGGA
EST: gi|151413006|gb|EV282814.1|EV282814
EST:     CTTTCTTGTTTGATGGAAGGAGACTCCGAGCTGAACAGACCCCTGATGAG                         CTAGAGATGGAGGATGGTGATGAGATAGATGCAATGCTGCACCAAACCGGA
genomic: CTTTCTTGTTTGATGGAAGGAGACTCCGAGCTGAACAGACCCCTGATGAGgtaaatttgg ... ttttgtgcagCTAGAGATGGAGGATGGTGATGAGATAGATGCAATGCTGCACCAAACCGGA
EST: gi|254345516|gb|GR851678.1|GR851678
EST:     CTTTCTTGTTTGATGGAAGGAGACTCCGAGCTGAACAGACCCCTGATGAG                         CTAGAGATGGAGGATGGTGATGAGATAGATGCAATGCTGCACCAAACCGGA
genomic: CTTTCTTGTTTGATGGAAGGAGACTCCGAGCTGAACAGACCCCTGATGAGgtaaatttgg ... ttttgtgcagCTAGAGATGGAGGATGGTGATGAGATAGATGCAATGCTGCACCAAACCGGA
EST: gi|254316463|gb|GR828000.1|GR828000
EST:     CTTTCTTGTTTGATGGAAGGAGACTCCGAGCTGAACAGACCCCTGATGAG                         CTAGAGATGGAGGATGGTGATGAGATAGATGCAATGCTGCACCAAACCGGA
genomic: CTTTCTTGTTTGATGGAAGGAGACTCCGAGCTGAACAGACCCCTGATGAGgtaaatttgg ... ttttgtgcagCTAGAGATGGAGGATGGTGATGAGATAGATGCAATGCTGCACCAAACCGGA
EST: gi|151394557|gb|EV264428.1|EV264428
EST:     CTTTCTTGTTTGATGGAAGGAGACTCCGAGCTGAACAGACCCCTGATGAG                         CTAGAGATGGAGGATGGTGATGAGATAGATGCAATGCTGCACCAAACCGGA
genomic: CTTTCTTGTTTGATGGAAGGAGACTCCGAGCTGAACAGACCCCTGATGAGgtaaatttgg ... ttttgtgcagCTAGAGATGGAGGATGGTGATGAGATAGATGCAATGCTGCACCAAACCGGA
EST: gi|151412622|gb|EV282434.1|EV282434
EST:     CTTTCTTGTTTGATGGAAGGAGACTCCGAGCTGAACAGACCCCTGATGAG                         CTAGAGATGGAGGATGGTGATGAGATAGATGCAATGCTGCACCAAACCGGA
genomic: CTTTCTTGTTTGATGGAAGGAGACTCCGAGCTGAACAGACCCCTGATGAGgtaaatttgg ... ttttgtgcagCTAGAGATGGAGGATGGTGATGAGATAGATGCAATGCTGCACCAAACCGGA
EST: gi|151408444|gb|EV278252.1|EV278252
EST:     CTTTCTTGTTTGATGGAAGGAGACTCCGAGCTGAACAGACCCCTGATGAG                         CTAGAGATGGAGGATGGTGATGAGATAGATGCAATGCTGCACCAAACCGGA
genomic: CTTTCTTGTTTGATGGAAGGAGACTCCGAGCTGAACAGACCCCTGATGAGgtaaatttgg ... ttttgtgcagCTAGAGATGGAGGATGGTGATGAGATAGATGCAATGCTGCACCAAACCGGA
EST: gi|151412572|gb|EV282384.1|EV282384
EST:     CTTTCTTGTTTGATGGAAGGAGACTCCGAGCTGAACAGACCCCTGATGAG                         CTAGAGATGGAGGATGGTGATGAGATAGATGCAATGCTGCACCAAACCGGA
genomic: CTTTCTTGTTTGATGGAAGGAGACTCCGAGCTGAACAGACCCCTGATGAGgtaaatttgg ... ttttgtgcagCTAGAGATGGAGGATGGTGATGAGATAGATGCAATGCTGCACCAAACCGGA
EST: gi|209705641|gb|BW673598.1|BW673598
EST:     CTTTCTTGTTTGATGGAAGGAGACTCCGAGCTGAACAGACCCCTGATGAG                         CTAGAGATGGAGGATGGTGATGAGATAGATGCAATGCTGCACCAAACCGGA
genomic: CTTTCTTGTTTGATGGAAGGAGACTCCGAGCTGAACAGACCCCTGATGAGgtaaatttgg ... ttttgtgcagCTAGAGATGGAGGATGGTGATGAGATAGATGCAATGCTGCACCAAACCGGA
EST: gi|213600235|gb|DB955859.1|DB955859
EST:     CTTTCTTGTTTGATGGAAGGAGACTCCGAGCTGAACAGACCCCTGATGAG                         CTAGAGATGGAGGATGGTGATGAGATAGATGCAATGCTGCACCAAACCGGA
genomic: CTTTCTTGTTTGATGGAAGGAGACTCCGAGCTGAACAGACCCCTGATGAGgtaaatttgg ... ttttgtgcagCTAGAGATGGAGGATGGTGATGAGATAGATGCAATGCTGCACCAAACCGGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ACTTATGAATGCATACTGTGATCGTCAATCTGTAGATTTTAACTCAATTGCTTTCTTGTTTGATGGAAGGAGACTCCGAGCTGAACAGACCCCTGATGAGgtaaatttggtttgttcaagccttgtacaaactcaagtttcatcttttaattgctgcaaagtacaattctgttactatgcctatagtttggtagaattat

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA