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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagttcattgttgttgtcgtttttcagtgactttattggattgttgtgtgagtgtgtgttttgagggttgtgtggtttggttcagGTGGTCGGAGAGGGGTATAAAATCGTATGCAATGGGGGAATTGGAAGCGAGGAAGCTCAAGTATCCAAACACGGGAACCGAGGCGCTTCTCATGGGGATT

Basic information

species Glycine max
transcript GLYMA16G32900.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G32900.1 (Glycine max), 3'ss of exon 2
lower sequence: AT4G25370.1 (Arabidopsis thaliana), 3'ss of exon 2
gtgagt-tcattgttgttgtcgtttt---tcagtgactttattggattgttgtgtgagtg--tgtgttttgagggttgtgtggtttggttcagGTGGTCGGAGAGGGGTATAAAATCGTATGCAATGGGGGAATTGGAAGCGAGGAAGCTCAAGTATCCAAACACGGGAACCGAGGCGCTTCTCATGGGGATT
|||||| ||| |     |  ||| |    |  || | | ||  |  |    || ||| |   || | |||     ||   || ||   || || ||||||| ||| | |||||| ||   ||||||||| |||||||| || |||||||||||||||||||  || || ||||| ||  |||||||||| |||
gtgagtctcactccaaattacgtatagaatttgtaattgtagagcttatacgtttgaattgttgaggttttttttttaattgtttgattttagATGGTCGGCGAGAGCTATAAAGTCACTTGCAATGGGAGAATTGGAGGCTAGGAAGCTCAAGTATCCAAGTACCGGGACCGAAGCCATTCTCATGGGTATT

upper sequence: GLYMA16G32900.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv16s0022g01840.t01 (Vitis vinifera), 3'ss of exon 2
-----------gtgagttcattgttgttgtcgtttttcagtgactttattggattgtt-gtgtgagtgtgtgttttgagggt-tgtgtggtttggttcagGTGGTCGGAGAGGGGTATAAAATCGTATGCAATGGGGGAATTGGAAGCGAGGAAGCTCAAGTATCCAAACACGGGAACCGAGGCGCTTCTCATGGGGATT
           |  |  | ||| || ||     |  | | |    ||      | |   |||| ||    |  ||| |  || || |   |   ||| || |||||||  ||||  ||||| || | | | |||| |||||||||||| |||||||| ||||| ||||| || ||||||||||| ||||| ||||| || 
aatataatattgaaaacttatttttctttgttctccttatttttcttggcaactagacagtgttagaacttactttaaatgtatgggaaatggtgtttagATGGTCGGCCAGGGCAATAAAGTCATTTTCTATGGCGGAATTGGAAGCAAGGAAGCTGAAGTACCCAAATACTGGAACCGAGGCTCTTCTAATGGGAATC
















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|151409668|gb|EV279476.1|EV279476
EST:     GAAACCCCTTTCGGATACGCCCGAGAAAACCCCAAA                         GTGGTCGGAGAGGGGTATAAAATCGTATGCAATGGGGGAATTGGAAGCGAG
genomic: GAAACCCCTTTCGGATACGCCCGAGAAAACCCCAAAgtgagttcat ... tttggttcagGTGGTCGGAGAGGGGTATAAAATCGTATGCAATGGGGGAATTGGAAGCGAG
EST: gi|298173736|gb|HO017072.1|HO017072
EST:     GAAACCCCTTTCGGATACGCCCGAGAAAACCCCAAA                         GTGGTCGGAGAGGGGTATAAAATCGTATGCAATGGGGGAATTGGAAGCGAG
genomic: GAAACCCCTTTCGGATACGCCCGAGAAAACCCCAAAgtgagttcat ... tttggttcagGTGGTCGGAGAGGGGTATAAAATCGTATGCAATGGGGGAATTGGAAGCGAG
EST: gi|21255639|gb|BQ452527.1|BQ452527
EST:     GAAACCCCTTTCGGATACGCCCGAGAAAACCCCAAA                         GTGGTCGGAGAGGTTGTATAAAATCGTATGCAATGGGGGAATTGGAAGCGA
genomic: GAAACCCCTTTCGGATACGCCCGAGAAAACCCCAAAgtgagttcat ... tttggttcagGTGGTCGGAGAGG-GGTATAAAATCGTATGCAATGGGGGAATTGGAAGCGA
EST: gi|192294928|gb|FG987596.1|FG987596
EST:     GAAACCCCTTTCGGATACGCCCGAGAAAACCCCAAA                         GTGGTCGGAGAGGGGTATAAAATCGTATGCAATGGGGGAATCGGAAGCGAG
genomic: GAAACCCCTTTCGGATACGCCCGAGAAAACCCCAAAgtgagttcat ... tttggttcagGTGGTCGGAGAGGGGTATAAAATCGTATGCAATGGGGGAATTGGAAGCGAG
EST: gi|213603660|gb|DB966802.1|DB966802
EST:     GAAACCCCTTTCGGATACGCCCGAGAAAACCCCAAA                         GTGGTCGGAGAGGGGTATAAAATCGTATGCAATGGGGGAATTGGAAGCGAG
genomic: GAAACCCCTTTCGGATACGCCCGAGAAAACCCCAAAgtgagttcat ... tttggttcagGTGGTCGGAGAGGGGTATAAAATCGTATGCAATGGGGGAATTGGAAGCGAG
EST: gi|213596607|gb|DB958220.1|DB958220
EST:     GAAACCCCTTTCGGATACGCCCGAGAAAACCCCAAA                         GTGGTCGGAGAGGGGTATAAAATCGTATGCAATGGGGGAATTGGAAGCGAG
genomic: GAAACCCCTTTCGGATACGCCCGAGAAAACCCCAAAgtgagttcat ... tttggttcagGTGGTCGGAGAGGGGTATAAAATCGTATGCAATGGGGGAATTGGAAGCGAG
EST: gi|298168134|gb|HO013397.1|HO013397
EST:     GAAACCCCTTTCGGATACGCCCGAGAAAACCCCAAA                         GTGGTCGGAGAGGGGTATAAAATCGTATGCAATGGGGGAATTGGAAGCGAG
genomic: GAAACCCCTTTCGGATACGCCCGAGAAAACCCCAAAgtgagttcat ... tttggttcagGTGGTCGGAGAGGGGTATAAAATCGTATGCAATGGGGGAATTGGAAGCGAG
EST: gi|14990899|gb|BI316572.1|BI316572
EST:     GAAACCCCTTTCGGATACGCCCGAGAAAACCCCAAA                         GTGGTCGGAGAGGGGTATAAAATCGTATGCAATGGGGGAATTGGAAGCGAG
genomic: GAAACCCCTTTCGGATACGCCCGAGAAAACCCCAAAgtgagttcat ... tttggttcagGTGGTCGGAGAGGGGTATAAAATCGTATGCAATGGGGGAATTGGAAGCGAG
EST: gi|10847829|gb|BF070447.1|BF070447
EST:     GAAACCCCTTTCGGATACGCCCGAGAAAACCCCAAA                         GTGGTCGGAGAGGGGTATAAAATCGTATGCAATGGGGGAATTGGAAGCGAG
genomic: GAAACCCCTTTCGGATACGCCCGAGAAAACCCCAAAgtgagttcat ... tttggttcagGTGGTCGGAGAGGGGTATAAAATCGTATGCAATGGGGGAATTGGAAGCGAG
EST: gi|21255849|gb|BQ452737.1|BQ452737
EST:     GAAACCCCTTTCGGATACGCCCGAGAAAACCCCAAA                         GTGGTCGGAGAGGGGTATAAAATCGTATGCAATGGGGGAATTGGAAGCGAG
genomic: GAAACCCCTTTCGGATACGCCCGAGAAAACCCCAAAgtgagttcat ... tttggttcagGTGGTCGGAGAGGGGTATAAAATCGTATGCAATGGGGGAATTGGAAGCGAG
EST: gi|22931782|gb|BU548921.1|BU548921
EST:     GAAACCCCTTTCGGATACGCCCGAGAAAACCCCAAA                         GTGGTCGGAGAGGGGTATAAAATCGTATGCAATGGGGGAATTGGAAGCGAG
genomic: GAAACCCCTTTCGGATACGCCCGAGAAAACCCCAAAgtgagttcat ... tttggttcagGTGGTCGGAGAGGGGTATAAAATCGTATGCAATGGGGGAATTGGAAGCGAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagttcattgttgttgtcgtttttcagtgactttattggattgttgtgtgagtgtgtgttttgagggttgtgtggtttggttcagGTGGTCGGAGAGGGGTATAAAATCGTATGCAATGGGGGAATTGGAAGCGAGGAAGCTCAAGTATCCAAACACGGGAACCGAGGCGCTTCTCATGGGGATT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA