Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTACAATAGATTGAGACCCTTAAGCTATCGTGGAGCAGATGTATTCCTGCTTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAAgtaagcttggcatttttctttttcttttgttttgtccctctctactctggactaattttttcccgtcattttcag

Basic information

species Glycine max
transcript GLYMA11G11510.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G11510.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os02g02840.1 (Oryza sativa), 5'ss of exon 3
TTACAATAGATTGAGACCCTTAAGCTATCGTGGAGCAGATGTATTCCTGCTTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAAgtaagcttggcatttttctttttcttt-----------tgttttgtccctctctactctggactaatt--ttttcccgtcattttcag------------
|||||| ||| |||||||  | || ||||||||||| ||||| ||||| || || ||||| || || |||| |||||||||||| |||||| | ||||| | |||     || |||  ||||   ||           |||  | |   | ||| || | |   ||    |||    ||||| || |             
TTACAACAGACTGAGACCACTGAGTTATCGTGGAGCTGATGTTTTCCTTCTGGCCTTCTCGCTAATCAGCAAGGCCAGCTATGAGAATGTTTCAAAGAAGgcaagggactcactttcattttctgttaataatattgatgtgctctttttttcttctttcgctaaagaagtttgttggtcatgtttaatttgagatcgtc

upper sequence: GLYMA11G11510.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM5G846811_T01 (Zea mays), 5'ss of exon 3
TTACAATAGATTGAGACCCTTAAGCTATCGTGGAGCAGATGTATTCCTGCTTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAAgtaagcttggcatttttctttttcttttgttttgtccctctctactctggactaattttttcccg------tcattttcag-------------------
|||||| ||| |||||||  | |||||||||||||| ||||| || || || |||||||| || || || | |||||||||||| |||||| | ||||| | |||  |   ||| || ||||   ||  ||   |   | | | || | | | |   |  ||  |      |  |||| ||                   
TTACAACAGACTGAGACCACTGAGCTATCGTGGAGCTGATGTTTTTCTTCTGGCTTTCTCACTGATCAGTAAGGCCAGCTATGAGAATGTTTCGAAGAAGgcaaggctctgattcttattttctattatttggctttgtgttttctttagtccagcgtcctctggaaatgcttgtttttagctcatttaccttacagtct

upper sequence: GLYMA11G11510.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv03s0038g02380.t01 (Vitis vinifera), 5'ss of exon 4
TTACAATAGATTGAGACCCTTAAGCTATCGTGGAGCAGATGTATTCCTGCTTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAAgtaagcttggcatttttctt------tttcttttgttttgtccctctc-tactctggactaattttttcccgtcattttcag----------------------------------
||||||||| |||||||| || ||||| ||||| |||||||| || |||||||||||||| ||||| |||| ||| ||||||||||||||||||||||||||||| ||||| | |    |      ||| |||  |||| || | ||| | |           |  ||    |  ||| | |                                  
TTACAATAGGTTGAGACCTTTGAGCTACCGTGGTGCAGATGTCTTTCTGCTTGCTTTCTCCCTCATTAGCAAGGCTAGCTATGAAAATGTTGCCAAGAAAgtaagtttggcttctactatgagagatttttttccttttttctccctcctgcaacatgtcgtctggttaatatggtttgctgataaattctttatgtgctctgtttccatattcag

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|7589435|gb|AW705209.1|AW705209
EST:     TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAA                         TGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
genomic: TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAAgtaagcttgg ... tcattttcagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
EST: gi|298169211|gb|HO020571.1|HO020571
EST:     TTGCTTTCTCTCTTATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAA                         TGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
genomic: TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAAgtaagcttgg ... tcattttcagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
EST: gi|298197330|gb|HO044809.1|HO044809
EST:     TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAA                         TGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
genomic: TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAAgtaagcttgg ... tcattttcagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
EST: gi|298171990|gb|HO021582.1|HO021582
EST:     TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAA                         TGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
genomic: TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAAgtaagcttgg ... tcattttcagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
EST: gi|16996922|gb|BM086294.1|BM086294
EST:     TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAA                         TGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
genomic: TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAAgtaagcttgg ... tcattttcagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
EST: gi|5760314|gb|AI965741.1|AI965741
EST:     TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAA                         TGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
genomic: TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAAgtaagcttgg ... tcattttcagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
EST: gi|151394170|gb|EV264041.1|EV264041
EST:     TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAA                         TGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
genomic: TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAAgtaagcttgg ... tcattttcagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
EST: gi|19346953|gb|BM891833.1|BM891833
EST:     TTGCTTTCTCTCTCATAAGCAGGGCTAGCTATGAAAATGTTGCCAAGAAA                         TGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
genomic: TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAAgtaagcttgg ... tcattttcagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
EST: gi|298177328|gb|HO027109.1|HO027109
EST:     TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAA                         TGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
genomic: TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAAgtaagcttgg ... tcattttcagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
EST: gi|193599687|gb|FK551538.1|FK551538
EST:     TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAA                         TGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
genomic: TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAAgtaagcttgg ... tcattttcagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
EST: gi|26058249|gb|CA801163.1|CA801163
EST:     TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAA                         TGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
genomic: TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAAgtaagcttgg ... tcattttcagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
EST: gi|5342846|gb|AI795130.1|AI795130
EST:     TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAA                         TGGATTCCTGAGTTGAGGCATTATGCTCCTGGAGTTCCAATTATTCTTGTT
genomic: TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAAgtaagcttgg ... tcattttcagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
EST: gi|23725796|gb|BU760863.1|BU760863
EST:     TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAA                         TGGATTCCTGAGTTGAGGCATTATGCT
genomic: TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAAgtaagcttgg ... tcattttcagTGGATTCCTGAGTTGAGGCATTATGCT
EST: gi|298182534|gb|HO031269.1|HO031269
EST:     TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAA                         TGGATTCCTGAGTTGGGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
genomic: TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAAgtaagcttgg ... tcattttcagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
EST: gi|298178107|gb|HO027490.1|HO027490
EST:     GGGCCAGCTATGAAAATGTTGCCAAGAAA                         TGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
genomic: GGGCCAGCTATGAAAATGTTGCCAAGAAAgtaagcttgg ... tcattttcagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
EST: gi|4293505|gb|AI442057.1|AI442057
EST:     TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAA                         TGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
genomic: TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAAgtaagcttgg ... tcattttcagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
EST: gi|192329017|gb|FK021091.1|FK021091
EST:     TTGCTTTCTCTCTCATAAGCATGGCCAGCTATGAAAATGTTGCCAAGAAA                         TGGATTCCTGAGTTGAGGCATTATGCTCCCGGTGTTCCAATTATTCTTGTT
genomic: TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAAgtaagcttgg ... tcattttcagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
EST: gi|192297529|gb|FG989535.1|FG989535
EST:     TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAA                         TGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
genomic: TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAAgtaagcttgg ... tcattttcagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
EST: gi|7589250|gb|AW705028.1|AW705028
EST:     TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAA                         TGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
genomic: TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAAgtaagcttgg ... tcattttcagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
EST: gi|192329018|gb|FK021092.1|FK021092
EST:     TTGCTTTCTCTCTCATAAGCATGGCCAGCTATGAAAATGTTGCCAAGAAA                         TGGATTCCTGAGTTGAGGCATTATGCTCCCGGTGTTCCAATTATTCTTGTT
genomic: TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAAgtaagcttgg ... tcattttcagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTACAATAGATTGAGACCCTTAAGCTATCGTGGAGCAGATGTATTCCTGCTTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAAgtaagcttggcatttttctttttcttttgttttgtccctctctactctggactaattttttcccgtcattttcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA