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

gtccgtccaactctttctctcgtattttcttatataaataatgcttagtaatttgcttcatttcaaactatcaatcaatgtgttggtaaaatgagtagtgtggccgttgttttgtagGAGTAGCTGAGTTAGATGGATCTCATGAGAATAAGGGAGGTTTGTTTAATTTCAATGGAATCAAGGGCGTGGCTTGTGGTATTCTTGCAGCTTGTACGGT

Basic information

species Glycine max
transcript GLYMA04G41210.1
intron # 1
splice site 3'
intron type U2

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|7693207|gb|AW761303.1|AW761303
EST:     ACGCTCATGTTTCACCCCTTCACCTTCAACGCTCAGAATTTCTTGCTCTG                         GAGTAGCTGAGTTAGATGGATCTCATGAGAATAAGGGAGGTTTGTTTAATT
genomic: ACGCTCATGTTTCACCCCTTCACCTTCAACGCTCAGAATTTCTTGCTCTGgtccgtccaa ... tgttttgtagGAGTAGCTGAGTTAGATGGATCTCATGAGAATAAGGGAGGTTTGTTTAATT
EST: gi|151403361|gb|EV273171.1|EV273171
EST:     ACGCTCATGTTTCACCCCTTCACCTTCAACGCTCAGAATTTCTTGCTCTG                         GAGTAGCTGAGTTAGATGGATCTCATGAGAATAAGGGAGGTTTGTTTAATT
genomic: ACGCTCATGTTTCACCCCTTCACCTTCAACGCTCAGAATTTCTTGCTCTGgtccgtccaa ... tgttttgtagGAGTAGCTGAGTTAGATGGATCTCATGAGAATAAGGGAGGTTTGTTTAATT
EST: gi|298168884|gb|HO009814.1|HO009814
EST:     ACGCTCGTGTTTCACCCCTTCACCTTCAACGCTCAGAATTTCTTGCTCTG                         GAGTAGCTGAGTTAGATGGATCTCATGAGAATAAGGGAGGTTTGTTTAATT
genomic: ACGCTCATGTTTCACCCCTTCACCTTCAACGCTCAGAATTTCTTGCTCTGgtccgtccaa ... tgttttgtagGAGTAGCTGAGTTAGATGGATCTCATGAGAATAAGGGAGGTTTGTTTAATT
EST: gi|298190185|gb|HO032306.1|HO032306
EST:     ACGCTCATGTTTCACCCCTTCACCTTCAACGCTCAGAATTTCTTGCTCTG                         GAGTAGCTGAGTTAGATGGATCTCATGAGAATAAGGGAGGTTTGTTTAATT
genomic: ACGCTCATGTTTCACCCCTTCACCTTCAACGCTCAGAATTTCTTGCTCTGgtccgtccaa ... tgttttgtagGAGTAGCTGAGTTAGATGGATCTCATGAGAATAAGGGAGGTTTGTTTAATT
EST: gi|21677030|gb|BQ629381.1|BQ629381
EST:     ACGCTCATGTTTCACCCCTTCACCTTCAACGCTCAGAATTTCTTGCTCTG                         GAGTAGCTGAGTTAGATGGATCTCATGAGAATAAGGGAGGTTTGTTTAATT
genomic: ACGCTCATGTTTCACCCCTTCACCTTCAACGCTCAGAATTTCTTGCTCTGgtccgtccaa ... tgttttgtagGAGTAGCTGAGTTAGATGGATCTCATGAGAATAAGGGAGGTTTGTTTAATT
EST: gi|298169288|gb|HO020648.1|HO020648
EST:     ACGCTCATGTTTCACCCCTTCACCTTCAACGCTCAGAATTTCTTGCTCTG                         GAGTAGCTGAGTTAGATGGATCTCATGAGAATAAGGGAGGTTTGTTTAATT
genomic: ACGCTCATGTTTCACCCCTTCACCTTCAACGCTCAGAATTTCTTGCTCTGgtccgtccaa ... tgttttgtagGAGTAGCTGAGTTAGATGGATCTCATGAGAATAAGGGAGGTTTGTTTAATT
EST: gi|298176429|gb|HO026664.1|HO026664
EST:     ACGCTCATGTTTCACCCCTTCACCTTCAACGCTCAGAATTTCTTGCTCTG                         GAGTAGCTGAGTTAGATGGATCTCATGAGAATAAGGGAGGTTTGTTTAATT
genomic: ACGCTCATGTTTCACCCCTTCACCTTCAACGCTCAGAATTTCTTGCTCTGgtccgtccaa ... tgttttgtagGAGTAGCTGAGTTAGATGGATCTCATGAGAATAAGGGAGGTTTGTTTAATT
EST: gi|298197933|gb|HO039472.1|HO039472
EST:     ACGCTCATGTTTCACCCCTTCACCTTCAACGCTCAGAATTTCTTGCTCTG                         GAGTAGCTGAGTTAGATGGATCTCATGAGAATAAGGGAGGTTTGTTTAATT
genomic: ACGCTCATGTTTCACCCCTTCACCTTCAACGCTCAGAATTTCTTGCTCTGgtccgtccaa ... tgttttgtagGAGTAGCTGAGTTAGATGGATCTCATGAGAATAAGGGAGGTTTGTTTAATT
EST: gi|23051927|gb|BU577116.1|BU577116
EST:     ACGCTCATGTTTCACCCCTTCACCTTCAACGCTCAGAATTTCTTGCTCTG                         GAGTAGCTGAGTTAGATGGATCTCATGAGAATAAGGGAGGTTTGTTTAATT
genomic: ACGCTCATGTTTCACCCCTTCACCTTCAACGCTCAGAATTTCTTGCTCTGgtccgtccaa ... tgttttgtagGAGTAGCTGAGTTAGATGGATCTCATGAGAATAAGGGAGGTTTGTTTAATT
EST: gi|120531916|gb|EH260049.1|EH260049
EST:     ACGCTCATGTTTCACCCCTTCACCTTCAACGCTCAGAATTTCTTGCTCTG                         GAGTAGCTGAGTTAGATGGATCTCATGAGAATAAGGGAGGTTTGTTTAATT
genomic: ACGCTCATGTTTCACCCCTTCACCTTCAACGCTCAGAATTTCTTGCTCTGgtccgtccaa ... tgttttgtagGAGTAGCTGAGTTAGATGGATCTCATGAGAATAAGGGAGGTTTGTTTAATT
EST: gi|26060058|gb|CA802972.1|CA802972
EST:     ACGCTCATGTTTCACCCCTTCACCTTCAACGCTCAGAATTTCTTGCTCTG                         GAGTAGCTGAGTTAGATGGATCTCATGAGAATAAGGGAGGTTTGTTTAATT
genomic: ACGCTCATGTTTCACCCCTTCACCTTCAACGCTCAGAATTTCTTGCTCTGgtccgtccaa ... tgttttgtagGAGTAGCTGAGTTAGATGGATCTCATGAGAATAAGGGAGGTTTGTTTAATT
EST: gi|19348660|gb|BM893192.1|BM893192
EST:     ACGCTCATGTTTCACCCCTTCACCTTCAACGCTCAGAATTTCTTGCTCTG                         GAGTAGCTGAGTTAGATGGATCTCATGAGAATAAGGGAGGTTTGTTTAATT
genomic: ACGCTCATGTTTCACCCCTTCACCTTCAACGCTCAGAATTTCTTGCTCTGgtccgtccaa ... tgttttgtagGAGTAGCTGAGTTAGATGGATCTCATGAGAATAAGGGAGGTTTGTTTAATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcaaactatcaatcaatgtgttggtaaaatgagtagtgtggccgttgttttgtagGAGTAGCTGAGTTAGATGGATCTCATGAGAATAAGGGAGGTTTGTTTAATTTCAATGGAATCAAGGGCGTGGCTTGTGGTATTCTTGCAGCTTGTACGGT
                                            ttgtttt  CT-rich tract
                        taaaatga  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtccgtccaactctttctctcgtattttcttatataaataatgcttagtaatttgcttcatttcaaactatcaatcaatgtgttggtaaaatgagtagtgtggccgttgttttgtagGAGTAGCTGAGTTAGATGGATCTCATGAGAATAAGGGAGGTTTGTTTAATTTCAATGGAATCAAGGGCGTGGCTTGTGGTATTCTTGCAGCTTGTACGGT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGCT