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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATTTCTTGAAGGCAGTGGATGAAGTAACCTCAAAGGATATCACTTCAATTTCGCAAAAACTCATTTCTTCTCCTCTCACAATGGCATCATATGGAGATGgtatttccttgtttttgtgaaaaattctccttgattgttttttttatcttgttcttgagtagtaatcttacctccccactttctgcag

Basic information

species Glycine max
transcript GLYMA08G03580.1
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G03580.1 (Glycine max), 5'ss of exon 11
lower sequence: Vv11s0016g02870.t01 (Vitis vinifera), 5'ss of exon 12
GATTTCTTGAAGGCAGTGGATGAAGTAACCTCAAAGGATATCACTTCAATTTCGCAAAAACTCATTTCTTCTCCTCTCACAATGGCATCATATGGAGATGgtatttccttgtttttgtgaaaaattctccttgattgttttttttatcttgttcttga-gtagtaatcttacctcccc--actttctgcag-----------
 ||||||||||||| |||||||| || || |  ||||||||  |||| ||  | || || ||  ||||||| ||||||||||||||||| || ||||||||||  |  |   |||  || |||     |||| | |||||| | | || |   | ||  || || | |||  |||  |  | |   ||||            
CATTTCTTGAAGGCTGTGGATGAGGTTACTTTGAAGGATATTGCTTCCATCACCCAGAAGCTTCTTTCTTCCCCTCTCACAATGGCATCGTACGGAGATGgtaacttttctatttcctggaaa----cccttaactgttttatgtttcattagcatgttgtggtgaccttttctcttcttaatcgttgcatttgtttcccag
















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|13480899|gb|BG510242.1|BG510242
EST:     TTCGCAAAAACTCATTTCTTCTCCTCTCACAATGGCATCATATGGAGATG                         TTCTCTATGTTCCAAGCTATGAATCAGTGAGCCTCAAGTTCCGTTCCTAAT
genomic: TTCGCAAAAACTCATTTCTTCTCCTCTCACAATGGCATCATATGGAGATGgtatttcctt ... ctttctgcagTTCTCTATGTTCCAAGCTATGAATCAGTGAGCCTCAAGTTCCGTTCCTAAT
EST: gi|15812744|gb|BI785019.1|BI785019
EST:     TTCGCAAAAACTCATTTCTTCCCCTCTCACAATGGCATCATATGGAGATG                         TTCTCTATGTTCCAAGCTATGAATCAGTGAGCCTCAAGTTCCGTTCCTAAT
genomic: TTCGCAAAAACTCATTTCTTCTCCTCTCACAATGGCATCATATGGAGATGgtatttcctt ... ctttctgcagTTCTCTATGTTCCAAGCTATGAATCAGTGAGCCTCAAGTTCCGTTCCTAAT
EST: gi|5605747|gb|AI899811.1|AI899811
EST:     TTCGCAAAAACTCATTTCTTCTCCTCTCACAATGGCATCATATGGAGATG                         TTCTCTATGTTCCAAGCTATGAATCAGTGAGCCTCAAGTTCCGTTCCTAAT
genomic: TTCGCAAAAACTCATTTCTTCTCCTCTCACAATGGCATCATATGGAGATGgtatttcctt ... ctttctgcagTTCTCTATGTTCCAAGCTATGAATCAGTGAGCCTCAAGTTCCGTTCCTAAT
EST: gi|21675780|gb|BQ628131.1|BQ628131
EST:     TTCGCAAAAACTCATTTCTTCTCCTCTCACAATGGCATCATATGGAGATG                         TTCTCTATGTTCCAAGCTATGAATCAGTGAGCCTCAAGTTCCGTTCCTAAT
genomic: TTCGCAAAAACTCATTTCTTCTCCTCTCACAATGGCATCATATGGAGATGgtatttcctt ... ctttctgcagTTCTCTATGTTCCAAGCTATGAATCAGTGAGCCTCAAGTTCCGTTCCTAAT
EST: gi|213606460|gb|DB976537.1|DB976537
EST:     TTCGCAAAAACTCATTTCTTCCCCTCTCACAATGGCATCATATGGAGATG                         TTCTCTATGTTCCAAGCTATGAATCAGTGAGCCTCAAGTTCCGTTCCTAAT
genomic: TTCGCAAAAACTCATTTCTTCTCCTCTCACAATGGCATCATATGGAGATGgtatttcctt ... ctttctgcagTTCTCTATGTTCCAAGCTATGAATCAGTGAGCCTCAAGTTCCGTTCCTAAT
EST: gi|21889670|gb|BQ742883.1|BQ742883
EST:     TTCGCAAAAACTCATTTCTTCTCCTCTCACAATGGCATCATATGGAGATG                         TTCTCTATGTTCCAAGCTATGAATCAGTGAGCCTCAAGTTCCGTTCCTAAT
genomic: TTCGCAAAAACTCATTTCTTCTCCTCTCACAATGGCATCATATGGAGATGgtatttcctt ... ctttctgcagTTCTCTATGTTCCAAGCTATGAATCAGTGAGCCTCAAGTTCCGTTCCTAAT
EST: gi|20498551|gb|BQ273481.1|BQ273481
EST:     TTCGCAAAAACTCATTTCTTCCCCTCTCACAATGGCATCATATGGAGATG                         TTCTCTATGTTCCAAGCTATGAATCAGTGAGCCTCTTTTTCCGTTCCTAAT
genomic: TTCGCAAAAACTCATTTCTTCTCCTCTCACAATGGCATCATATGGAGATGgtatttcctt ... ctttctgcagTTCTCTATGTTCCAAGCTATGAATCAGTGAGCCTCAAGTTCCGTTCCTAAT
EST: gi|213599745|gb|DB975810.1|DB975810
EST:     TTCGCAAAAACTCATTTCTTCCCCTCTCACAATGGCATCATATGGAGATG                         TTCTCTATGTTCCAAGCTATGAATCAGTGAGCCTCAAGTTCCGTTCCTAAT
genomic: TTCGCAAAAACTCATTTCTTCTCCTCTCACAATGGCATCATATGGAGATGgtatttcctt ... ctttctgcagTTCTCTATGTTCCAAGCTATGAATCAGTGAGCCTCAAGTTCCGTTCCTAAT
EST: gi|20814409|gb|BQ298887.1|BQ298887
EST:     TTCGCAAAAACTCATTTCTTCTCCTCTCACAATGGCATCATATGGAGATG                         TTCTCTATGTTCCAAGCTATGAATCAGTGAGCCTCAAGTTCCGTTCCTAAT
genomic: TTCGCAAAAACTCATTTCTTCTCCTCTCACAATGGCATCATATGGAGATGgtatttcctt ... ctttctgcagTTCTCTATGTTCCAAGCTATGAATCAGTGAGCCTCAAGTTCCGTTCCTAAT
EST: gi|17153896|gb|BM143829.1|BM143829
EST:     TTCGCAAAAACTCATTTCTTCTCCTCTCACAATGGCATCATATGGAGATG                         TTCTCTATGTTCCAAGCTATGAATCAGTGAGCCTCAAGTTCCGTTCCTAAT
genomic: TTCGCAAAAACTCATTTCTTCTCCTCTCACAATGGCATCATATGGAGATGgtatttcctt ... ctttctgcagTTCTCTATGTTCCAAGCTATGAATCAGTGAGCCTCAAGTTCCGTTCCTAAT
EST: gi|13180739|gb|BG352079.1|BG352079
EST:     TTCGCAAAAACTCATTTCTTCTCCTCTCACAATGGCATCATATGGAGATG                         TTCTCTATGTTCCAAGCTATGAATCAGTGAGCCTCAAGTTCCGTTCCTAAT
genomic: TTCGCAAAAACTCATTTCTTCTCCTCTCACAATGGCATCATATGGAGATGgtatttcctt ... ctttctgcagTTCTCTATGTTCCAAGCTATGAATCAGTGAGCCTCAAGTTCCGTTCCTAAT
EST: gi|9902657|gb|BE611546.1|BE611546
EST:     TTCGCAAAAACTCATTTCTTCCCCTCTCACAATGGCATCATATGGAGATG                         TTCTCTATGTTCCAAGCTATGAATCAGTGAGCCTCAAGTTCCGTTCCTAAT
genomic: TTCGCAAAAACTCATTTCTTCTCCTCTCACAATGGCATCATATGGAGATGgtatttcctt ... ctttctgcagTTCTCTATGTTCCAAGCTATGAATCAGTGAGCCTCAAGTTCCGTTCCTAAT
EST: gi|254330475|gb|GR841740.1|GR841740
EST:     TTCGCAAAAACTCATTTCTTCTCCTCTCACAATGGCATCATATGGAGATG                         TTCTCTATGTTCCAAGCTATGAATCAGTGAGCCTCAAGTTCCGTTCCTAAT
genomic: TTCGCAAAAACTCATTTCTTCTCCTCTCACAATGGCATCATATGGAGATGgtatttcctt ... ctttctgcagTTCTCTATGTTCCAAGCTATGAATCAGTGAGCCTCAAGTTCCGTTCCTAAT
EST: gi|21638801|gb|BM139847.1|BM139847
EST:     TTCGCAGAAACTCATTTCTTCTCCTCTCACAATGGCATCATATGGAGATG                         TTCTCTATGTTCCAAGCTATGAATCAGTGAGCCTCAAGTTCCGTTCCTAAT
genomic: TTCGCAAAAACTCATTTCTTCTCCTCTCACAATGGCATCATATGGAGATGgtatttcctt ... ctttctgcagTTCTCTATGTTCCAAGCTATGAATCAGTGAGCCTCAAGTTCCGTTCCTAAT
EST: gi|254325529|gb|GR838410.1|GR838410
EST:     TTCGCAAAAACTCATTTCTTCTCCTCTCACAATGGCATCATATGGAGATG                         TTCTCTATGTTCCAAGCTATGAATCAGTGAGCCTCAAGTTCCGTTCCTAAT
genomic: TTCGCAAAAACTCATTTCTTCTCCTCTCACAATGGCATCATATGGAGATGgtatttcctt ... ctttctgcagTTCTCTATGTTCCAAGCTATGAATCAGTGAGCCTCAAGTTCCGTTCCTAAT
EST: gi|12772990|gb|BG237917.1|BG237917
EST:     TTCGCAAAAACTCATTTCTTCTCCTCTCACAATGGCATCATATGGAGATG                         TTCTCTATGTTCCAAGCTATGAATCAGTGAGCCTCAAGTTCCGTTCCTAAT
genomic: TTCGCAAAAACTCATTTCTTCTCCTCTCACAATGGCATCATATGGAGATGgtatttcctt ... ctttctgcagTTCTCTATGTTCCAAGCTATGAATCAGTGAGCCTCAAGTTCCGTTCCTAAT
EST: gi|8826321|gb|BE210051.1|BE210051
EST:     TCGCAAAAACTCATTTCTTCCCCTCTCACAATGGCATCATANTG-AGATG                         TTCTCTATGTNCCAAGCTATGAATCAGTGAGCCTCAAGTTCCGTTCC
genomic: TCGCAAAAACTCATTTCTTCTCCTCTCACAATGGCATCATA-TGGAGATGgtatttcctt ... ctttctgcagTTCTCTATGTTCCAAGCTATGAATCAGTGAGCCTCAAGTTCCGTTCC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GATTTCTTGAAGGCAGTGGATGAAGTAACCTCAAAGGATATCACTTCAATTTCGCAAAAACTCATTTCTTCTCCTCTCACAATGGCATCATATGGAGATGgtatttccttgtttttgtgaaaaattctccttgattgttttttttatcttgttcttgagtagtaatcttacctccccactttctgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG