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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTCATTTTATAGTTGCAGCTTGTGAGAATATGATAAGTGGAACAGGTATGAGGCCTGGAGATATTGTCACAGCTTCAAATGGAAAGACTATAGAGgtgagaatttattaggttcatattgttttgatttgtacgcatgtaaatttaagttactatgtatggtattgagacaattggcctattgggtggattttta...

Basic information

species Glycine max
transcript GLYMA19G22730.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G22730.1 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os12g24650.1 (Oryza sativa), 5'ss of exon 6
GTTCATTTTATAGTTGCAGCTTGTGAGAATATGATAAGTGGAACAGGTATGAGGCCTGGAGATATTGTCACAGCTTCAAATGGAAAGACTATAGAGgtgagaatttattaggttcatattgttttgatttgtacgcatgtaaatttaagttactat-gtatggtattgagacaattggcctattgggtggattttta-
|||||||||||   ||| || || || |||||||||||||| ||||| ||||||||||| || ||||| || ||||| |||||||| ||||| |||||   | | |  ||      |         |    ||  || | | |    ||  |   |  | | |||  ||    ||     |  | |    | ||||  
GTTCATTTTATTTCTGCTGCATGCGAAAATATGATAAGTGGCACAGGCATGAGGCCTGGTGACATTGTGACTGCTTCTAATGGAAAAACTATTGAGgtattattcttataatactttgagaagacaaca-atattca-gcatacacgaggcatagttatttagtaacgacgtgataccttttcttgtaatacttttga

upper sequence: GLYMA19G22730.1 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os02g55140.1 (Oryza sativa), 5'ss of exon 5
----GTTCATTTTATAGTTGCAGCTTGTGAGAATATGATAAGTGGAACAGGTATGAGGCCTGGAGATATTGTCACAGCTTCAAATGGAAAGACTATAGAGgtgagaat----ttattaggttcatattgtttt----gatttgtacgcatg-taaatttaagttactatgt-atggtattgagaca---attggcctattgggtggattttta---------------
    ||||||||||| ||||| |||||||| || ||||| ||||| ||||| ||||| ||||| || ||||| || ||||| || || |||||||| |||||  |  |    | ||    | | |||  || |    || | | |  |||| |  ||| |  | | |  || || || |  | | |    || || ||| |  |  || | ||               
AGAGGTTCATTTTATTGTTGCTGCTTGTGAAAACATGATTAGTGGCACAGGCATGAGACCTGGTGACATTGTGACTGCTTCTAACGGGAAGACTATTGAGgtatgtttgttgtgatacaatgcgtatgattgtagaagactaggaatcatgattcattaacataaatcagtgatagtgtgaaaaaatgcgtttgcttat-gtattcatctgtatttatttttcttcag

upper sequence: GLYMA19G22730.1 (Glycine max), 5'ss of exon 6
lower sequence: AT4G30920.1 (Arabidopsis thaliana), 5'ss of exon 6
GTTCATTTTATAGTTGCAGCTTGTGAGAATATGATAAGTGGAACAGGTATGAGGCCTGGAGATATTGTCACAGCTTCAAATGGAAAGACTATAGAGgtgagaatttattaggttcatattgttttgatttgtacgcatgtaaatttaagttactatgtatggtattgagacaattggcctattgggtggattttta-
|| || ||||| || |||||||||||||||||||||||||| || || ||||| ||||||||| |  ||||||| ||||| |||||||| || |||||   |    |     | |||||   ||    ||     ||      |  |  || | ||   | || ||  | |||      | | ||||||  ||  | 
GTGCACTTTATTGTCGCAGCTTGTGAGAATATGATAAGTGGTACTGGAATGAGACCTGGAGATGTCCTCACAGCCTCAAACGGAAAGACGATTGAGgtatcataacaccgtttccatatgaattcagctt-----caaaaggttcgagctttccattgttagttttacgccaaactaattgt-gggtggtattgcag

upper sequence: GLYMA19G22730.1 (Glycine max), 5'ss of exon 6
lower sequence: AT4G30910.1 (Arabidopsis thaliana), 5'ss of exon 6
GTTCATTTTATAGTTGCAGCTTGTGAGAATATGATAAGTGGAACAGGTATGAGGCCTGGAGATATTGTCACAGCTTCAAATGGAAAGACTATAGAGgtgagaatttattaggttcatattgttttgatttgtacgcatgtaaatttaag-ttactatgtatggtattgagacaattggcctattgggtggattttta
|| || ||||| || |||||||||||||||||||||||||| || || ||||| ||||||||| |  ||||||| ||||| || ||||| || |||||   | |  |     | |||||   ||    ||   || |   |  || ||| || | ||   | || |||                             
GTGCACTTTATTGTCGCAGCTTGTGAGAATATGATAAGTGGTACCGGAATGAGACCTGGAGATGTCATCACAGCCTCAAACGGGAAGACAATTGAGgtatcattacaccgtttccatatgaattcagctt---cgaa---aggttcaagctttccattgttagtgttgcag--------------------------

upper sequence: GLYMA19G22730.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv11s0037g00180.t01 (Vitis vinifera), 5'ss of exon 6
GTTCATTTTATAGTTGCAGCTTGTGAGAATATGATAAGTGGAACAGGTATGAGGCCTGGAGATATTGTCACAGCTTCAAATGGAAAGACTATAGAGgtgagaatttattaggttcatattgttttgatttgt--acgcatgtaaatttaagttactatgtatggtattgagacaattggcctattgggtggattttta
|| ||||| || ||||||||||||||||||||||||||||||||||| ||||||||||||||  ||||||||||||||||||||||||| || ||||||     ||  |        |   ||   | || |  ||  | |  |  ||  |||   | |  |  |||| |    || ||  |   |  |||||    |
GTGCATTTCATTGTTGCAGCTTGTGAGAATATGATAAGTGGAACAGGCATGAGGCCTGGAGACGTTGTCACAGCTTCAAATGGAAAGACAATTGAGgtgctttctttgttttgcaggaaaattacaacttttcaacttaggagaggttttgttggaaggc-ttttatt-acttgataggtgtcaagaatggatgcaca

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|21602543|gb|BQ612874.1|BQ612874
EST:     GGCCTGGAGATATTGTCACAGCTTCAAATGGAAAGACTATAGAG                         GTTAATAACACAGATGCAGAGGGTAGGCTTACCCTGGCAGATGCTCTGGTG
genomic: GGCCTGGAGATATTGTCACAGCTTCAAATGGAAAGACTATAGAGgtgagaattt ... tcttgtgtagGTTAATAACACAGATGCAGAGGGTAGGCTTACCCTGGCAGATGCTCTGGTG
EST: gi|151398506|gb|EV268377.1|EV268377
EST:     GTATGAGGCCTGGAGATATTGTCACAGCTTCAAATGGAAAGACTATAGAG                         GTTAATAACACAGATGCAGAGGGTAGGCTTACCCTGGCAGATGCTCTGGTG
genomic: GTATGAGGCCTGGAGATATTGTCACAGCTTCAAATGGAAAGACTATAGAGgtgagaattt ... tcttgtgtagGTTAATAACACAGATGCAGAGGGTAGGCTTACCCTGGCAGATGCTCTGGTG
EST: gi|209704258|gb|BW683486.1|BW683486
EST:     AAGACTATAGAG                         GTTAATAACACAGATGCAGAGGGTAGGCTTACCCTGGCAGATGCTCTGGTG
genomic: AAGACTATAGAGgtgagaattt ... tcttgtgtagGTTAATAACACAGATGCAGAGGGTAGGCTTACCCTGGCAGATGCTCTGGTG
EST: gi|254323478|gb|GR835924.1|GR835924
EST:     GTATGAGGCCTGGAGATATTGTCACAGCTTCAAATGGAAAGACTATAGAG                         GTTAATAACACAGATGCAGAGGGTAGGCTTACCCTGGCAGATGCTCTGGTG
genomic: GTATGAGGCCTGGAGATATTGTCACAGCTTCAAATGGAAAGACTATAGAGgtgagaattt ... tcttgtgtagGTTAATAACACAGATGCAGAGGGTAGGCTTACCCTGGCAGATGCTCTGGTG
EST: gi|254323479|gb|GR835925.1|GR835925
EST:     GTATGAGGCCTGGAGATATTGTCACAGCTTCAAATGGAAAGACTATAGAG                         GTTAATAACACAGATGCAGAGGGTAGGCTTACCCTGGCAGATGCTCTGGTG
genomic: GTATGAGGCCTGGAGATATTGTCACAGCTTCAAATGGAAAGACTATAGAGgtgagaattt ... tcttgtgtagGTTAATAACACAGATGCAGAGGGTAGGCTTACCCTGGCAGATGCTCTGGTG
EST: gi|192311508|gb|FK005239.1|FK005239
EST:     GTATGAGGCCTGGAGATATTGTCACAGCTTCAAATGGAAGGACTATAGAG                         GTTAATAACACAGATGCAGAGGGTAGGCTTACCCTGGCAGATGCTCTGGTG
genomic: GTATGAGGCCTGGAGATATTGTCACAGCTTCAAATGGAAAGACTATAGAGgtgagaattt ... tcttgtgtagGTTAATAACACAGATGCAGAGGGTAGGCTTACCCTGGCAGATGCTCTGGTG
EST: gi|16278041|gb|BI942695.1|BI942695
EST:     GTATGAGGCCTGGAGATATTGTCACAGCTTCAAATGGAAAGACTATAGAG                         GTTAATAACACAGATGCAGAGGGTAGGCTTACCCTGGCAGATGCTCTGGTG
genomic: GTATGAGGCCTGGAGATATTGTCACAGCTTCAAATGGAAAGACTATAGAGgtgagaattt ... tcttgtgtagGTTAATAACACAGATGCAGAGGGTAGGCTTACCCTGGCAGATGCTCTGGTG
EST: gi|208264998|gb|GE065326.1|GE065326
EST:     GTATGAGGCCTGGAGATATTGTCACAGCTTCAAATGGAAAGACTATAGAG                         GTTAATAACACAGATGCAGAGGGTAGGCTTACCCTGGCAGATGCTCTGGTG
genomic: GTATGAGGCCTGGAGATATTGTCACAGCTTCAAATGGAAAGACTATAGAGgtgagaattt ... tcttgtgtagGTTAATAACACAGATGCAGAGGGTAGGCTTACCCTGGCAGATGCTCTGGTG
EST: gi|213595473|gb|DB962413.1|DB962413
EST:     AAGACTATAGAG                         GTTAATAACACAGATGCAGAGGGTAGGCTTACCCTGGCAGATGCTCTGGTG
genomic: AAGACTATAGAGgtgagaattt ... tcttgtgtagGTTAATAACACAGATGCAGAGGGTAGGCTTACCCTGGCAGATGCTCTGGTG
EST: gi|8282655|gb|BE020216.1|BE020216
EST:     GTATGAGGCCTGNAGATATTGTCACAGCTTCAAATGGAAAGACTATAGAG                         GTTAATAACACAGATGCAGAGGGTAGGCTTACCCTGACAGATGCTCTGGTG
genomic: GTATGAGGCCTGGAGATATTGTCACAGCTTCAAATGGAAAGACTATAGAGgtgagaattt ... tcttgtgtagGTTAATAACACAGATGCAGAGGGTAGGCTTACCCTGGCAGATGCTCTGGTG
EST: gi|192311498|gb|FK005229.1|FK005229
EST:     GTATGAGGCCTGGAGATATTGTCACAGCTTCAAATGGAAGGACTATAGAG                         GTTAATAACACAGATGCAGAGGGTAGGCTTACCCTGGCAGATGCTCTGGTG
genomic: GTATGAGGCCTGGAGATATTGTCACAGCTTCAAATGGAAAGACTATAGAGgtgagaattt ... tcttgtgtagGTTAATAACACAGATGCAGAGGGTAGGCTTACCCTGGCAGATGCTCTGGTG
EST: gi|254317061|gb|GR826006.1|GR826006
EST:     GTATGAGGCCTGGAGATATTGTCACAGCTTCAAATGGAAAGACTATAGAG                         GTTAATAACACAGATGCAGAGGGTAGGCTTA-CCTGGCAGATGCTCTGGTG
genomic: GTATGAGGCCTGGAGATATTGTCACAGCTTCAAATGGAAAGACTATAGAGgtgagaattt ... tcttgtgtagGTTAATAACACAGATGCAGAGGGTAGGCTTACCCTGGCAGATGCTCTGGTG
EST: gi|209710547|gb|BW661979.1|BW661979
EST:     TGGAGATATTGTCACAGCTTCAAATGGAAAGACTATAGAG                         GTTAATAACGCAGATGCAGAGGGTAGGCTTACCCTGGCAGATGCTCTGGTG
genomic: TGGAGATATTGTCACAGCTTCAAATGGAAAGACTATAGAGgtgagaattt ... tcttgtgtagGTTAATAACACAGATGCAGAGGGTAGGCTTACCCTGGCAGATGCTCTGGTG
EST: gi|151407204|gb|EV277019.1|EV277019
EST:     GTATGAGGCCTGGAGATATTGTCACAGCTTCAAATGGAAAGACTATAGAG                         GTTAATAACACAGATGCAGAGGGTAGGCTTACCCTGGCAGATGCTCTGGTG
genomic: GTATGAGGCCTGGAGATATTGTCACAGCTTCAAATGGAAAGACTATAGAGgtgagaattt ... tcttgtgtagGTTAATAACACAGATGCAGAGGGTAGGCTTACCCTGGCAGATGCTCTGGTG
EST: gi|192311499|gb|FK005230.1|FK005230
EST:     GTATGAGGCCTGGAGATATTGTCACAGCTTCAAATGGAAGGACTATAGAG                         GTTAATAACACAGATGCAGAGGGTAGGCTTACCCTGGCAGATGCTCTGGTG
genomic: GTATGAGGCCTGGAGATATTGTCACAGCTTCAAATGGAAAGACTATAGAGgtgagaattt ... tcttgtgtagGTTAATAACACAGATGCAGAGGGTAGGCTTACCCTGGCAGATGCTCTGGTG
EST: gi|209724515|gb|BW658374.1|BW658374
EST:     GTATGAGGCCTGGAGATATTGTCACAGCTTCAAATGGAAAGACTATAGAG                         GTTAATAACACAGATGCAGAGGGTAGGCTTACCCTGGCAGATGCTCTGGTG
genomic: GTATGAGGCCTGGAGATATTGTCACAGCTTCAAATGGAAAGACTATAGAGgtgagaattt ... tcttgtgtagGTTAATAACACAGATGCAGAGGGTAGGCTTACCCTGGCAGATGCTCTGGTG
EST: gi|192311507|gb|FK005238.1|FK005238
EST:     GTATGAGGCCTGGAGATATTGTCACAGCTTCAAATGGAAGGACTATAGAG                         GTTAATAACACAGATGCAGAGGGTAGGCTTACCCTGGCAGATGCTCTGGTG
genomic: GTATGAGGCCTGGAGATATTGTCACAGCTTCAAATGGAAAGACTATAGAGgtgagaattt ... tcttgtgtagGTTAATAACACAGATGCAGAGGGTAGGCTTACCCTGGCAGATGCTCTGGTG
EST: gi|151397711|gb|EV267584.1|EV267584
EST:     GTATGAGGCCTGGAGATATTGTCACAGCTTCAAATGGAAAGACTATAGAG                         GTTAATAACACAGATGCAGAGGGTAGGCTTACCCTGGCAGATGCTCTGGTG
genomic: GTATGAGGCCTGGAGATATTGTCACAGCTTCAAATGGAAAGACTATAGAGgtgagaattt ... tcttgtgtagGTTAATAACACAGATGCAGAGGGTAGGCTTACCCTGGCAGATGCTCTGGTG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTCATTTTATAGTTGCAGCTTGTGAGAATATGATAAGTGGAACAGGTATGAGGCCTGGAGATATTGTCACAGCTTCAAATGGAAAGACTATAGAGgtgagaatttattaggttcatattgttttgatttgtacgcatgtaaatttaagttactatgtatggtattgagacaattggcctattgggtggattttta

- - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgggtgg