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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCGGCCTTCGGAAGATCGAACTATTCCCTTGAGTGTAATTGCAGAGCGTACAAAGCTTTCTATAGAGAATGTGGAGCATCTCCTCATGAAGAGCCTATCTgtaagttctattggaagttctaggaaaaaaatgtgaaaattttttattttctatctcaaccatgtaaagtagtacacttccaacctgtgtatctgagatg...

Basic information

species Glycine max
transcript GLYMA01G01460.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA01G01460.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G083076_T01 (Zea mays), 5'ss of exon 5
TCGGCCTTCGGAAGATCGAACTATTCCCTTGAGTGTAATTGCAGAGCGTACAAAGCTTTCTATAGAGAATGTGGAGCATCTCCTCATGAAGAGCCTATCTgtaagttctattggaag--ttctaggaaaaaaatgtgaaaattttttattttctatctcaaccatgtaaagtagtacacttccaacctgtgtatctgagatg
|||||| || |||||| |||||||||| || ||||| ||||| ||||  || |||||||| ||     |||||||| ||||||| ||||||||||| || |||| ||  ||||| |   || |  | | || || | |   |  |    |  || | |||    |         |    |  || | ||| |      ||  
TCGGCCATCTGAAGATAGAACTATTCCATTAAGTGTTATTGCTGAGCAGACTAAGCTTTCAATCAGTGATGTGGAGTATCTCCTTATGAAGAGCCTCTCGgtaacttg-attggcattctttttagcacaagatattatcgtcatggcctccctttttcacttgttcttttccttgt-ttgtcatcatgttttcaatggaaa

upper sequence: GLYMA01G01460.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv02s0012g02660.t01 (Vitis vinifera), 5'ss of exon 5
TCGGCCTTCGGAAGATCGAACTATTCCCTTGAGTGTAATTGCAGAGCGTACAAAGCTTTCTATAGAGAATGTGGAGCATCTCCTCATGAAGAGCCTATCTgtaagttcta-----ttggaagttctaggaaaaaaatgtgaaaattttttattttctatct--caaccatgtaaagtagtacacttccaacctgtgtatctgagatg
 || ||||| |||||||| |||||||||||||   | |||||||| || || || |||||| | ||| |||||||| |||| |||||||||||||| ||||||||| ||       || || || ||  |  |||||||  ||| ||  | ||    ||||   | |     |   |  |   ||||  | |||   |         
CCGTCCTTCAGAAGATCGTACTATTCCCTTGAACATCATTGCAGAACGCACCAAACTTTCTGTGGAGGATGTGGAGTATCTTCTCATGAAGAGCCTTTCTgtaagtccttgatttctgaaatttgtattagtaaaatgtttaaaattcgttttgagcatctattacctgatcagcttccttttcttcagatctggacact-------
















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|151410399|gb|EV280214.1|EV280214
EST:     CAAAGCTTTCTATAGAGAATGTGGAGCATCTCCTCATGAAGAGCCTATCT                         GTTCATCTAATTGAGGGTATAATTGATCAAGTTGAGGGCACAGTCCACGTT
genomic: CAAAGCTTTCTATAGAGAATGTGGAGCATCTCCTCATGAAGAGCCTATCTgtaagttcta ... tgaattgcagGTTCATCTAATTGAGGGTATAATTGATCAAGTTGAGGGCACAGTCCACGTT
EST: gi|14008620|gb|BG725224.1|BG725224
EST:     CAAAGCTTTCTATAGAGAATGTGGAGCATCTCCTCATGAAGAGCCTATCT                         GTTCATCTAATTGAGGGTATAATTGATCAAGTTGAGGGCACAGTCCACGTT
genomic: CAAAGCTTTCTATAGAGAATGTGGAGCATCTCCTCATGAAGAGCCTATCTgtaagttcta ... tgaattgcagGTTCATCTAATTGAGGGTATAATTGATCAAGTTGAGGGCACAGTCCACGTT
EST: gi|12688358|gb|BG154694.1|BG154694
EST:     CAAAGCTTTCTATAGAGAATGTGGAGCATCTCCTCATGAAGAGCCTATCT                         GTTCATCTAATTGAGGGTATAATTGATCAAGTTGAGGGCACAGTCCACGTT
genomic: CAAAGCTTTCTATAGAGAATGTGGAGCATCTCCTCATGAAGAGCCTATCTgtaagttcta ... tgaattgcagGTTCATCTAATTGAGGGTATAATTGATCAAGTTGAGGGCACAGTCCACGTT
EST: gi|10844308|gb|BF067617.1|BF067617
EST:     CAAAGCTTTCTATAGAGAATGTGGAGCATCTCCTCATGAAGAGCCTATCT                         GTTCATCTAATTGAGGGTATAATTGATCAAGTTGAGGGCACAGTCCACGTT
genomic: CAAAGCTTTCTATAGAGAATGTGGAGCATCTCCTCATGAAGAGCCTATCTgtaagttcta ... tgaattgcagGTTCATCTAATTGAGGGTATAATTGATCAAGTTGAGGGCACAGTCCACGTT
EST: gi|13311489|gb|BG405140.1|BG405140
EST:     CAAAGCTTTCTATAGAGAATGTGGAGCATCTCCTCATGAAGAGCCTATCT                         GTTCATCTAATTGAGGGTATAATTGATCAAGTTGAGGGCACAGTCCACGTT
genomic: CAAAGCTTTCTATAGAGAATGTGGAGCATCTCCTCATGAAGAGCCTATCTgtaagttcta ... tgaattgcagGTTCATCTAATTGAGGGTATAATTGATCAAGTTGAGGGCACAGTCCACGTT
EST: gi|6501937|gb|AW203310.1|AW203310
EST:     CAAAGCTTTCTATAGAGAATGTGGAGCATCTCCTCATGAAGAGCCTATCT                         GTTCATCTAATTGAGGGTATAATTGATCAAGTTGAGGGCACAGTCCAAGTG
genomic: CAAAGCTTTCTATAGAGAATGTGGAGCATCTCCTCATGAAGAGCCTATCTgtaagttcta ... tgaattgcagGTTCATCTAATTGAGGGTATAATTGATCAAGTTGAGGGCACAGTCCACGTT
EST: gi|6718923|gb|AW306570.1|AW306570
EST:     CAAAGCTTTCTATAGAGAATGTGGAGCATCTCCTCATGAAGAGCCTATCT                         GTTCATCTAATTGAGGGTATAATTGATCAAGTTGAGGGCACAGTCCACGTT
genomic: CAAAGCTTTCTATAGAGAATGTGGAGCATCTCCTCATGAAGAGCCTATCTgtaagttcta ... tgaattgcagGTTCATCTAATTGAGGGTATAATTGATCAAGTTGAGGGCACAGTCCACGTT
EST: gi|10848178|gb|BF070721.1|BF070721
EST:     CAAAGCTTTCTATAGAGAATGTGGAGCATCTCCTCATGAAGAGCCTATCT                         GTTCATCTAATTGAGGGTATAATTGATCAAGTTGAGGGCACAGTCCACGTT
genomic: CAAAGCTTTCTATAGAGAATGTGGAGCATCTCCTCATGAAGAGCCTATCTgtaagttcta ... tgaattgcagGTTCATCTAATTGAGGGTATAATTGATCAAGTTGAGGGCACAGTCCACGTT
EST: gi|6069811|gb|AW099417.1|AW099417
EST:     CAAAGCTTTCTATAGAGAATGTGGAGCATCTCCTCATGAAGAGCCTATCT                         GTTCATCTAATTGACGGTATAATTGATCAAGCTGAGGGCACAGCCCACGTT
genomic: CAAAGCTTTCTATAGAGAATGTGGAGCATCTCCTCATGAAGAGCCTATCTgtaagttcta ... tgaattgcagGTTCATCTAATTGAGGGTATAATTGATCAAGTTGAGGGCACAGTCCACGTT
EST: gi|11688213|gb|BF595889.1|BF595889
EST:     CAAAGCTATCTATAGAGAATGTGGAGCATCTCCTCATGAAGAGCCTATCT                         GTTCATCTAATTGAGGGTATAATTGATCAAGTTGATGGCACAGTCCACGTT
genomic: CAAAGCTTTCTATAGAGAATGTGGAGCATCTCCTCATGAAGAGCCTATCTgtaagttcta ... tgaattgcagGTTCATCTAATTGAGGGTATAATTGATCAAGTTGAGGGCACAGTCCACGTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCGGCCTTCGGAAGATCGAACTATTCCCTTGAGTGTAATTGCAGAGCGTACAAAGCTTTCTATAGAGAATGTGGAGCATCTCCTCATGAAGAGCCTATCTgtaagttctattggaagttctaggaaaaaaatgtgaaaattttttattttctatctcaaccatgtaaagtagtacacttccaacctgtgtatctgagatg

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggaaaaaa