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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...attctatttcccttcattccatttctttcatctctatttccaaataaacaaaggattagattggtagtttttcacttatccttttgatttctatctgcagTTGACCAGGCACAGCTTAATCGAGCCAAACAGGCTACCAAATCTGCAATTTTGATGAATTTGGAATCAAGA

Basic information

species Glycine max
transcript GLYMA08G03580.1
intron # 8
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|5605747|gb|AI899811.1|AI899811
EST:     TTGATATAGCTGCTAATGAGATTCTTGGTGTTGCTACTCCTGGACAAG                         TTGACCAGGCACAGCTTAATCGAGCCAAACAGGCTACCAAATCTGCAATTT
genomic: TTGATATAGCTGCTAATGAGATTCTTGGTGTTGCTACTCCTGGACAAGgtttgctgtt ... ctatctgcagTTGACCAGGCACAGCTTAATCGAGCCAAACAGGCTACCAAATCTGCAATTT
EST: gi|20814409|gb|BQ298887.1|BQ298887
EST:     GAGATTCTTGGTGTTGCTACTCCTGGACAAG                         TTGACCAGGCACAGCTTAATCGAGCCAAACAGGCTACCAAATCTGCAATTT
genomic: GAGATTCTTGGTGTTGCTACTCCTGGACAAGgtttgctgtt ... ctatctgcagTTGACCAGGCACAGCTTAATCGAGCCAAACAGGCTACCAAATCTGCAATTT
EST: gi|254330475|gb|GR841740.1|GR841740
EST:     CATTGATATAGCTGCTAATGAGATTCTTGGTGTTGCTACTCCTGGACAAG                         TTGACCAGGCACAGCTTAATCGAGCCAAACAGGCTACCAAATCTGCAATTT
genomic: CATTGATATAGCTGCTAATGAGATTCTTGGTGTTGCTACTCCTGGACAAGgtttgctgtt ... ctatctgcagTTGACCAGGCACAGCTTAATCGAGCCAAACAGGCTACCAAATCTGCAATTT
EST: gi|21638801|gb|BM139847.1|BM139847
EST:     CATTGATATAGCTGCTAATGAGATTCTTGGTGTTGCTACTCCTGGACAAG                         TTGACCAGGCACAGCTTAATCGAGCCAAACAGGCTACCAAATCTGCAATTT
genomic: CATTGATATAGCTGCTAATGAGATTCTTGGTGTTGCTACTCCTGGACAAGgtttgctgtt ... ctatctgcagTTGACCAGGCACAGCTTAATCGAGCCAAACAGGCTACCAAATCTGCAATTT
EST: gi|254325529|gb|GR838410.1|GR838410
EST:     CATTGATATAGCTGCTAATGAGATTCTTGGTGTTGCTACTCCTGGACAAG                         TTGACCAGGCACAGCTTAATCGAGCCAAACAGGCTACCAAATCTGCAATTT
genomic: CATTGATATAGCTGCTAATGAGATTCTTGGTGTTGCTACTCCTGGACAAGgtttgctgtt ... ctatctgcagTTGACCAGGCACAGCTTAATCGAGCCAAACAGGCTACCAAATCTGCAATTT
EST: gi|8826321|gb|BE210051.1|BE210051
EST:     CATTGATATAGCTGCTAATGAGATTCTTGGTGTTGCTACTCCTGGACAAG                         TTGACCAGGCACAGCTTAATCGAGCCAAACAGGCTACCAAATCTGCAATTT
genomic: CATTGATATAGCTGCTAATGAGATTCTTGGTGTTGCTACTCCTGGACAAGgtttgctgtt ... ctatctgcagTTGACCAGGCACAGCTTAATCGAGCCAAACAGGCTACCAAATCTGCAATTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaacaaaggattagattggtagtttttcacttatccttttgatttctatctgcagTTGACCAGGCACAGCTTAATCGAGCCAAACAGGCTACCAAATCTGCAATTTTGATGAATTTGGAATCAAGA
                                    ttttgat  putative branch site (score: 4)
                                 tccttttgatttct  CT-rich tract
                                    ttttgattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
attctatttcccttcattccatttctttcatctctatttccaaataaacaaaggattagattggtagtttttcacttatccttttgatttctatctgcagTTGACCAGGCACAGCTTAATCGAGCCAAACAGGCTACCAAATCTGCAATTTTGATGAATTTGGAATCAAGA

- - - - tcccttc
- - - - - - - - - ccatttc
- - - - - - - - - - - - - - - - - - - - -aaataaa