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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACGAGAGCAAATTGATTGATCTTCTCAACGGCTCTGATTACGTACCAACCTATGAAGACAAAGATGCTGACTGGATGCTCGTTGGTGACGTACCGTGGGAgtaagtctggaccattatttctctaagcacacaccacatccttaattattaggaccatttctcgattaaacattactaatttggatatataatttcacag

Basic information

species Glycine max
transcript GLYMA03G40760.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G40760.1 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os12g40890.1 (Oryza sativa), 5'ss of exon 3
ACGAGAGCAAATTGATTGATCTTCTCAACGGCTCTGATTACGTACCAACCTATGAAGACAAAGATGCTGACTGGATGCTCGTTGGTGACGTACCGTGGGAgtaagtctggaccatt----atttctctaagcacaca-ccacatccttaattattaggacc---atttctcgattaaac---attactaatttggatatataattt-cacag--------------------------------------------
||||||||||  |   |||||| |||||||||||||| || || |||||||| || ||||| || |  |||||||||||||| || ||||| || ||||||| |||     | | |     ||||| | | |  | | | |  |  |||||| | |  |||   |||     | ||  |   ||  || || ||  |  ||  | | ||                                               
ACGAGAGCAAGATTGCTGATCTGCTCAACGGCTCTGAATATGTGCCAACCTACGAGGACAAGGACGGCGACTGGATGCTCGTCGGCGACGTCCCATGGGAgtcagtaatctctacttaaattttctattatctaatatctaagtgtttaattttaataacctgaattaaggtactagtctgaatctctgatatgagtccatgctctgcatctgtgttctgaattctgaccattttgtttggaaatggaaatttcag

upper sequence: GLYMA03G40760.1 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os03g53150.1 (Oryza sativa), 5'ss of exon 3
ACGAGAGCAAATTGATTGATCTTCTCAACGGCTCTGATTACGTACCAACCTATGAAGACAAAGATGCTGACTGGATGCTCGTTGGTGACGTACCGTGGGAgtaagtctggaccattatttctctaagcacaca-ccacatccttaattattaggaccatttctcgattaaacattactaatttggatatataatttcacag------------------------
    || |||  ||| |||  |    || |||||||||   ||  |||| ||||||||||| |||| |||||||||||| ||||| || || |||||| |||| ||    ||  | |||  | |   | |  | |    | | | ||| |      |||   | || |     |||   ||       |  | |||| |                          
---GGAACAATATGAATGAGGTG---AATGGCTCTGATGCTGTTACAACTTATGAAGACAAGGATGGTGACTGGATGCTTGTTGGAGATGTCCCGTGGCAgtatgttactact-tcattcttgtgcccccttaactgttttccttattttccacctcatgattagaatgcggtttagcgataccacgttcaagtttctcgcattagctgattggttactctgcag

upper sequence: GLYMA03G40760.1 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os03g43400.1 (Oryza sativa), 5'ss of exon 3
-ACGAGAGCAAATTGATTGATCTTCTCAACGGCTCTGATTACGTACCAACCTATGAAGACAAAGATGCTGACTGGATGCTCGTTGGTGACGTACCGTGGGAgtaagtctggaccattatttctctaagcacacaccacatccttaattattaggacc-atttctcgattaaacattactaat---ttggatatataatttcacag-
  |   || | |   ||  | ||     | | |   || ||||| || || || || ||||| || |  |||||||||||||| || ||||| ||||||||||||| ||    |    |  |  |||||| | | | ||    |||| ||||   || ||      |   | ||   |  ||   | |      ||| |   ||  
AGCTGAAGGAGAGCAAT-AAGCTGAGAGATGACCTGGAGTACGTGCCGACGTACGAGGACAAGGACGGCGACTGGATGCTCGTCGGCGACGTCCCGTGGGAgtaagcct----cgccgtcgcgataagcata-atcccagttctaataattaatccccatcagctaagctagcagatcggatggatcgatcgagtaactgatcaac

upper sequence: GLYMA03G40760.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G159285_T01 (Zea mays), 5'ss of exon 3
ACGAGAGCAAATTGATTGATCTTCTCAACGGCTCTGATTACGTACCAACCTATGAAGACAAAGATGCTGACTGGATGCTCGTTGGTGACGTACCGTGGGAgtaagt-ctggaccattattt-ctctaagcacacaccacatcct-taattattaggaccatttctcgattaaacattactaatttggatatataatttcacag
| ||| | ||| |  ||||||   ||| |||  |||||   ||  | || || |||||||| ||||  ||||||||||||||||| ||||| ||||||||||| || ||| |   |  | | |  | | |    |    |||    || | ||  | |     ||   ||| |   | |    |||  | | |       |||
ATGAGGGAAAACTAGTTGATCCGGTCAGCGGTGCTGATGTGGTCACTACTTACGAAGACAAGGATGGCGACTGGATGCTCGTTGGCGACGTCCCGTGGGAgtatgttctgcattctagtgtgccatcatctaggatttgatcaggcaaatgttcaggcttcagcttc-ttatatgctgccttgttgattgt-tgtccctgcag

upper sequence: GLYMA03G40760.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G138268_T01 (Zea mays), 5'ss of exon 3
ACGAGAGCAAATTGATTGATCTTCTCAACGGCTCTGATTACGTACCAACCTATGAAGACAAAGATGCTGACTGGATGCTCGTTGGTGACGTACCGTGGGAgtaagt-ctggaccattatttctctaagcacacaccacatccttaattattaggaccatttctcgattaaacattactaatttggatatataatttcacag
||||||||||  || | ||||| ||||||||||| || ||||| || ||||| || ||||| || |  |||||||||||||| || || || |||||||||| ||  ||| |    |     |||   |   ||| | |  | | ||||| |  |     |       ||| | || ||||||  || |  | |||||   
ACGAGAGCAAGCTGGTGGATCTGCTCAACGGCTCCGAGTACGTGCCGACCTACGAGGACAAGGACGGGGACTGGATGCTCGTCGGCGATGTGCCGTGGGAgtgagcactgcatgcatgcgcttctt--cctgcactatactccttattat-attattgcctaatcggaaaataataataatttccattt-cattttcag--

upper sequence: GLYMA03G40760.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G077356_T01 (Zea mays), 5'ss of exon 3
ACGAGAGCAAATTGATTGATCTTCTCAACGGCTCTGATTACGTA---CCAACCTATGAAGACAAAGATGCTGACTGGATGCTCGTTGGTGACGTACCGTGGGAgtaagt---ctggaccattatttc----tctaagcacacaccacatccttaattattaggaccatttctcgattaaacattactaatttggatatataatttc-acag
   || | | |||| ||||||    |  ||   ||||| | ||     | || || |||||||| |||| |||||||||||| || || ||||| ||||||||||| ||   | |  | |   |  |    |||     |  |     |     || ||||||||      |   ||  |  |  |     ||  | | |  |  |  |||
---AGGGGAGATTGGTTGATCCGGCCGGCGATGCTGATGATGTGGTCACTACTTACGAAGACAAGGATGGTGACTGGATGCTGGTCGGCGACGTCCCGTGGGAgtatgttctccgttctagcgtgccatcgtctgctttcgtatttactgacccatgattaggact-ccagtgtcttgtatgtcgccttgctgattttctggtccctgcag

upper sequence: GLYMA03G40760.1 (Glycine max), 5'ss of exon 2
lower sequence: AT3G04730.1 (Arabidopsis thaliana), 5'ss of exon 3
ACGAGAGCAAATTGATTGATCTTCTCAACGGCTCTGATTACGTACCAACCTATGAAGACAAAGATGCTGACTGGATGCTCGTTGGTGACGTACCGTGGGAgtaagtctggaccattatttctctaagcacacaccacatccttaattattaggaccatttctcgattaaacatt-actaatttgg-atatataatttcacag
| ||||| |||||||| |||||||| ||||| || ||||| || ||||| |||||||| |||||||  ||||||||||| || || |||||||||||||||| |||    |   |||| ||| |||    | |    ||   | |||||||  |  |  |||  |  ||| ||| | | |  ||   | |  | | |   ||
ATGAGAGTAAATTGATCGATCTTCTAAACGGATCAGATTATGTTCCAACATATGAAGATAAAGATGGCGACTGGATGCTTGTAGGAGACGTACCGTGGGAgtgagt----atttttatatctttaaatttatat---atgaattattattataaatacgtctatacaaaatatttatttacatgttgtttggactattttag

upper sequence: GLYMA03G40760.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv14s0081g00010.t01 (Vitis vinifera), 5'ss of exon 3
ACGAGAGCAAATTGATTGATCTTCTCAACGGCTCTGATTACGTACCAACCTATGAAGACAAAGATGCTGACTGGATGCTCGTTGGTGACGTACCGTGGGAgtaagtctggaccatt----atttctctaagcacacaccacatccttaa-ttattaggaccatttc-tcgattaaacattactaatttggatatataatttca--cag
| |||||||||||||| |||||| | ||||| || |||||||| || || ||||||||||||||||  ||||||||||| ||||| ||||| || |||||||||||    ||  ||    || | |   |    | |     ||      |||     |  | | | | ||||  || | | ||||     | |  ||||| |  |||
ATGAGAGCAAATTGATCGATCTTTTGAACGGTTCCGATTACGTGCCTACTTATGAAGACAAAGATGGAGACTGGATGCTTGTTGGAGACGTGCCATGGGAgtaagttacaacatttgacaatattttccaatttaaattgtttcaaaggcttacatcaattaatccatagattttac-taattaatccttctttggaatttgaatcag

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|213593460|gb|DB977147.1|DB977147
EST:     TATGAAGACAAAGATGCTGACTGGATGCTCGTTGGTGACGTACCGTGGGA                         AATGTTCGTGGAATCATGCAAGCGCCTGCGTATAATGAAAGGATAGGAGGC
genomic: TATGAAGACAAAGATGCTGACTGGATGCTCGTTGGTGACGTACCGTGGGAgtaagtctgg ... aatttcacagAATGTTCGTGGAATCATGCAAGCGCCTGCGTATAATGAAAGGATCTGAGGC
EST: gi|254347843|gb|GR854092.1|GR854092
EST:     TATGAAGACAAAGATGCTGACTGGATGCTCGTTGGTGACGTACCGTGGGA                         AATGTTCGTGGAATCATGCAAGCGCCTGCGTATAATGAAAGGATCTGAG-C
genomic: TATGAAGACAAAGATGCTGACTGGATGCTCGTTGGTGACGTACCGTGGGAgtaagtctgg ... aatttcacagAATGTTCGTGGAATCATGCAAGCGCCTGCGTATAATGAAAGGATCTGAGGC
EST: gi|192299772|gb|FG993322.1|FG993322
EST:     TATGAAGACAAAGATGCTGACTGGATGCTCGTTGGTGACGTACCGTGGGA                         AATGTTCGTGGAATCATGCAAGCGCCTGCGTATAATGAAAGGATTTGAGGC
genomic: TATGAAGACAAAGATGCTGACTGGATGCTCGTTGGTGACGTACCGTGGGAgtaagtctgg ... aatttcacagAATGTTCGTGGAATCATGCAAGCGCCTGCGTATAATGAAAGGATCTGAGGC
EST: gi|192305993|gb|FG993625.1|FG993625
EST:     TATGAAGACAAAGATGCTGACTGGATGCTCGTTGGTGACGTACCGTGGGA                         AATGTTCGTGGAATCATGCAAGCGCCTGCGTATAATGAAAGGATTTGAGGC
genomic: TATGAAGACAAAGATGCTGACTGGATGCTCGTTGGTGACGTACCGTGGGAgtaagtctgg ... aatttcacagAATGTTCGTGGAATCATGCAAGCGCCTGCGTATAATGAAAGGATCTGAGGC
EST: gi|26060235|gb|CA803149.1|CA803149
EST:     TATGAAGACAAAGATGCTGACTGGATGCTCGTTGGTGACGTACCGTGGGA                         AATGTTCGTGGAATCATGCAAGCGCCTGCGTATAATGAAAGGATCTGAGGC
genomic: TATGAAGACAAAGATGCTGACTGGATGCTCGTTGGTGACGTACCGTGGGAgtaagtctgg ... aatttcacagAATGTTCGTGGAATCATGCAAGCGCCTGCGTATAATGAAAGGATCTGAGGC
EST: gi|254347844|gb|GR854093.1|GR854093
EST:     TATGAAGACAAAGATGCTGACTGGATGCTCGTTGGTGACGTACCGTGGGA                         AATGTTCGTGGAATCATGCAAGCGCCTGCGTATAATGAAAGGATCTGAGGC
genomic: TATGAAGACAAAGATGCTGACTGGATGCTCGTTGGTGACGTACCGTGGGAgtaagtctgg ... aatttcacagAATGTTCGTGGAATCATGCAAGCGCCTGCGTATAATGAAAGGATCTGAGGC
EST: gi|58019236|gb|CX705978.1|CX705978
EST:     TATGAAGACAAAGATGCTGACTGGATGCTCGTTGGTGACGTACCGTGGGA                         AATGTTCGTGGAATCATGCAAGCGCCTGCGTATAATGAAAGGATCTGAGGC
genomic: TATGAAGACAAAGATGCTGACTGGATGCTCGTTGGTGACGTACCGTGGGAgtaagtctgg ... aatttcacagAATGTTCGTGGAATCATGCAAGCGCCTGCGTATAATGAAAGGATCTGAGGC
EST: gi|151405406|gb|EV275220.1|EV275220
EST:     TATGAAGACAAAGATGCTGACTGGATGCTCGTTGGTGACGTACCGTGGGA                         AATGTTCGTGGAATCATGCAAGCGCCTGCGTATAATGAAAGGATCTGAG-C
genomic: TATGAAGACAAAGATGCTGACTGGATGCTCGTTGGTGACGTACCGTGGGAgtaagtctgg ... aatttcacagAATGTTCGTGGAATCATGCAAGCGCCTGCGTATAATGAAAGGATCTGAGGC
EST: gi|37994207|gb|CF805953.1|CF805953
EST:     TATGAAGACAAAGATGCTGACTGGATGCTCGTTGGTGACGTACCGTGGGA                         AATGTTCGTGGAATCATGCAAGCGCCTGCGTATAATGAAAGGATCTGAGGC
genomic: TATGAAGACAAAGATGCTGACTGGATGCTCGTTGGTGACGTACCGTGGGAgtaagtctgg ... aatttcacagAATGTTCGTGGAATCATGCAAGCGCCTGCGTATAATGAAAGGATCTGAGGC
EST: gi|37996072|gb|CF807661.1|CF807661
EST:     TATGAAGACNAAGATGCTGACTGGATGCTCGTTGGTGACGTACCGTGGGA                         AATGTTCGTGGAATCATGCAAGCGCCTGCGTATAATGAAAGGATCTGAGGC
genomic: TATGAAGACAAAGATGCTGACTGGATGCTCGTTGGTGACGTACCGTGGGAgtaagtctgg ... aatttcacagAATGTTCGTGGAATCATGCAAGCGCCTGCGTATAATGAAAGGATCTGAGGC
EST: gi|254337775|gb|GR845345.1|GR845345
EST:     TATGAAGACAAAGATGCTGACTGGATGCTCGTTGGTGACGTACCGTGGGA                         AATGTTCGTGGAATCATGCAAGCGCCTGCGTATAATGAAAGGATCTGAGGC
genomic: TATGAAGACAAAGATGCTGACTGGATGCTCGTTGGTGACGTACCGTGGGAgtaagtctgg ... aatttcacagAATGTTCGTGGAATCATGCAAGCGCCTGCGTATAATGAAAGGATCTGAGGC
EST: gi|192331445|gb|FK022721.1|FK022721
EST:     TATGAAGACAAAGATGCTGACTGGATGCTCGTTGGTGACGTACCGTGGGA                         AATGTTCGTGGAATCATGCAAGCGCCTGCGTATAATGAAAGGATTTGAGGC
genomic: TATGAAGACAAAGATGCTGACTGGATGCTCGTTGGTGACGTACCGTGGGAgtaagtctgg ... aatttcacagAATGTTCGTGGAATCATGCAAGCGCCTGCGTATAATGAAAGGATCTGAGGC
EST: gi|151407948|gb|EV277763.1|EV277763
EST:     TATGAAGACAAAGATGCTGACTGGATGCTCGTTGGTGACGTACCGTGGGA                         AATGTTCGTGGAATCATGCAAGCGCCTGCGTATAATG
genomic: TATGAAGACAAAGATGCTGACTGGATGCTCGTTGGTGACGTACCGTGGGAgtaagtctgg ... aatttcacagAATGTTCGTGGAATCATGCAAGCGCCTGCGTATAATG
EST: gi|26047583|gb|CA784317.1|CA784317
EST:     TATGAAGACAAAGATGCTGACTGGATGCTCGTTGGTGACGTACCGTGGGA                         AATGTTCGTGGAATCATGCAAGCGCCTGCGTATAATGAAAGGATCTGAGGC
genomic: TATGAAGACAAAGATGCTGACTGGATGCTCGTTGGTGACGTACCGTGGGAgtaagtctgg ... aatttcacagAATGTTCGTGGAATCATGCAAGCGCCTGCGTATAATGAAAGGATCTGAGGC
EST: gi|209708631|gb|BW678808.1|BW678808
EST:     TATGAAGACAAAGATGCTGACTGGATGCTCGTTGGTGACGTACCGTGGGA                         AATGTTCGTGGAATCATGCAAGCGCCTGCGTATAATGAAAGGATCTGAGGC
genomic: TATGAAGACAAAGATGCTGACTGGATGCTCGTTGGTGACGTACCGTGGGAgtaagtctgg ... aatttcacagAATGTTCGTGGAATCATGCAAGCGCCTGCGTATAATGAAAGGATCTGAGGC
EST: gi|192306903|gb|FK002625.1|FK002625
EST:     TATGAAGACAAAGATGCTGACTGGATGCTCGTTGGTGACGTACCGTGGGA                         AATGTTCGTGGA
genomic: TATGAAGACAAAGATGCTGACTGGATGCTCGTTGGTGACGTACCGTGGGAgtaagtctgg ... aatttcacagAATGTTCGTGGA
EST: gi|207763941|gb|GD738834.1|GD738834
EST:     TATGAAGACAAAGATGCTGACTGGATGCTCGTTGGTGACGTACCGTGGGA                         AATGTTCGTGGAATCATGCAAGCGCCTGCGTATAATGAAAGGATCTGAGGC
genomic: TATGAAGACAAAGATGCTGACTGGATGCTCGTTGGTGACGTACCGTGGGAgtaagtctgg ... aatttcacagAATGTTCGTGGAATCATGCAAGCGCCTGCGTATAATGAAAGGATCTGAGGC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ACGAGAGCAAATTGATTGATCTTCTCAACGGCTCTGATTACGTACCAACCTATGAAGACAAAGATGCTGACTGGATGCTCGTTGGTGACGTACCGTGGGAgtaagtctggaccattatttctctaagcacacaccacatccttaattattaggaccatttctcgattaaacattactaatttggatatataatttcacag

- - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG