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

CCTGTGCCTCAGGTGTTGTTCAGACAGCTTTGTATGCAGATTTCTTCTACTATTATTTCATCAGgtaatgttattgtctgttaaggtcgatcttgtttttgttatgctcatataacaaatgggtaatataaggagttttgttttgcag

Basic information

species Glycine max
transcript GLYMA08G12570.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G12570.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G101413_T01 (Zea mays), 5'ss of exon 5
CCTGTGCCTCAGGTGTTGTTCAGACAGCTTTGTATGCAGATTTCTTCTACTATTATTTCATCAGgtaatgt---tattgtctgttaaggtcg-atcttgtttttgt-tatgctcatataacaaa----tgggtaatataaggagttttgttttgcag-------
| ||     | ||| | || || |||||| |||||||||||||||| |||||||||||| | ||||||  |   ||   |     || |||  ||   |||    | |||  ||||||  |       |   || |||      |||  ||| |          
CTTGGCTTGCTGGTTTGGTGCAAACAGCTCTGTATGCAGATTTCTTTTACTATTATTTCTTAAGgtaaactgcgtaccattgtgaaatgtcacataccgttaaaatctatcatcatatttcttttttttacttattattgatgctttcatttcgatcattgcag

upper sequence: GLYMA08G12570.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G408989_T03 (Zea mays), 5'ss of exon 4
CCTGTGCCTCAGGTGTTGTTCAGACAGCTTTGTATGCAGATTTCTTCTACTATTATTTCATCAGgtaatgttattgtc--tgttaaggtcgatcttgtttttgt-tatgctcatataac--aaatgggtaatataaggagttttgttttgcag-------
| ||     | ||| | || || |||||| |||||||||||||||| |||||||||||| | |||| |  |   |  |  ||| ||     || |  ||    | |||  || ||   |     |    | |||    | ||   | | |          
CTTGGCTTGCTGGTTTGGTGCAAACAGCTCTGTATGCAGATTTCTTTTACTATTATTTCTTAAGgtgaactgcataccattgtgaaatgtcatatcattaacatctatcatcgtactccttggttactgagtattgacacttccatgtcgatcactgcag
















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|151397667|gb|EV267540.1|EV267540
EST:     GTTGTTCAGACAGCTTTGTATGCAGATTTCTACTACTATTATTTCATCAG                         CTGGAAGAACAATTCAAAACTGAAGTTGCCTGCCTGAATTATCACGAGGTG
genomic: GTTGTTCAGACAGCTTTGTATGCAGATTTCTTCTACTATTATTTCATCAGgtaatgttat ... tgttttgcagCTGGAAGAACAATTCAAAACTGAAGTTGCCTGCCTGAATTATCACGAGGTG
EST: gi|192296942|gb|FG990273.1|FG990273
EST:     GTTGTTCAGACAGCTTTGTATGCAGATTTCTTCTACTATTATTTCATCAG                         CTGGAAGAACAATTCAAAACTGAAGTTGCCTGCCTGAATTATCACGAGGTG
genomic: GTTGTTCAGACAGCTTTGTATGCAGATTTCTTCTACTATTATTTCATCAGgtaatgttat ... tgttttgcagCTGGAAGAACAATTCAAAACTGAAGTTGCCTGCCTGAATTATCACGAGGTG
EST: gi|254319449|gb|GR830700.1|GR830700
EST:     GTTGTTCAGACAGCTTTGTATGCAGATTTCTTCTACTATTATTTCATCAG                         CTGGAAGAACAATTCAAAACTGAAGTTGCCTGCCTGAATTATCACGAG-TG
genomic: GTTGTTCAGACAGCTTTGTATGCAGATTTCTTCTACTATTATTTCATCAGgtaatgttat ... tgttttgcagCTGGAAGAACAATTCAAAACTGAAGTTGCCTGCCTGAATTATCACGAGGTG
EST: gi|151404363|gb|EV274173.1|EV274173
EST:     GTTGTTCAGACAGCTTTGTATGCAGATTTCTTCTACTATCATTTCATCAG                         CTGGAAGAACAATTCAAAACCGAAGTTGCCTGCCTGAATTATCACGAGGTG
genomic: GTTGTTCAGACAGCTTTGTATGCAGATTTCTTCTACTATTATTTCATCAGgtaatgttat ... tgttttgcagCTGGAAGAACAATTCAAAACTGAAGTTGCCTGCCTGAATTATCACGAGGTG
EST: gi|254319450|gb|GR830701.1|GR830701
EST:     GTTGTTCAGACAGCTTTGTATGCAGATTTCTTCTACTATTATTTCATCAG                         CTGGAAGAACAATTCAAAACTGAAGTTGCCTGCCTGAATTATCACGAGGTG
genomic: GTTGTTCAGACAGCTTTGTATGCAGATTTCTTCTACTATTATTTCATCAGgtaatgttat ... tgttttgcagCTGGAAGAACAATTCAAAACTGAAGTTGCCTGCCTGAATTATCACGAGGTG
EST: gi|192301914|gb|FG995532.1|FG995532
EST:     GACAGCTTTGTATGCAGATTTCTTCTACTATTATTTCATCAG                         CTGGAAGAACAATTCAAAACTGAAGTTGCCTGCCTGAATTATCACGAGGTG
genomic: GACAGCTTTGTATGCAGATTTCTTCTACTATTATTTCATCAGgtaatgttat ... tgttttgcagCTGGAAGAACAATTCAAAACTGAAGTTGCCTGCCTGAATTATCACGAGGTG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CCTGTGCCTCAGGTGTTGTTCAGACAGCTTTGTATGCAGATTTCTTCTACTATTATTTCATCAGgtaatgttattgtctgttaaggtcgatcttgtttttgttatgctcatataacaaatgggtaatataaggagttttgttttgcag

- - - - - - - - - - - - - - - - -  GCAGAT