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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACTGACACCAAGAAGATATCGGCTGTATCTATATTCTTTGAAACAATGCCATACAGATTGAATGAGAGCACTGGTTATATCGATTATGACCAGgtaggtaggtaccattgtattctgtgttgtggatattctttcttatcaaagagaatcttttaagcagtcggactgtttctatttcagttgctgttcactg...

Basic information

species Glycine max
transcript GLYMA14G36280.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA14G36280.1 (Glycine max), 5'ss of exon 7
lower sequence: LOC_Os03g52840.2 (Oryza sativa), 5'ss of exon 7
ACTGACACCAAGAAGATATCGGCTGTATCTATATTCTTTGAAACAATGCCATACAGATTGAATGAGAGCACTGGTTATATCGATTATGACCAGgtaggtaggtaccattgtattctgtgttgtggatattcttt--cttatcaaag-----agaatcttttaagcagtcggactgtttctatttcagttgctgttcactg
||||| || |||||||| || || || || ||||||||||| |||||||| ||||||||| |||| |||||||| |  || |||||||| |||||     |    | || | |  | |||| |  ||    |||  |||||  ||      |  ||  ||| |   ||  ||  ||||  |||  |      ||      
ACTGATACTAAGAAGATTTCAGCAGTTTCGATATTCTTTGAGACAATGCCCTACAGATTGGATGAAAGCACTGGCTTGATTGATTATGATCAGgtgcaatgtcctccttatctgttttgtttta-atgccatttaacttattgaattctctatcattcttttataggtatga--gttttcattggacaaaacgtgt----

upper sequence: GLYMA14G36280.1 (Glycine max), 5'ss of exon 7
lower sequence: GRMZM2G135283_T03 (Zea mays), 5'ss of exon 7
ACTGACACCAAGAAGATATCGGCTGTATCTATATTCTTTGAAACAATGCCATACAGATTGAATGAGAGCACTGGTTATATCGATTATGACCAGgtaggtaggtaccattgtattctgtgttgtggatattctttcttatcaaagagaatcttttaagcagtcggactgtttctatttcagttgctgttcactg-------
|||||||| ||||||||||| ||    || ||||| ||||| |||||||| ||||||||| |||| |||||||| |  || ||||| || |||||   |   | ||      ||||   || | ||||  | |  | | ||  | ||    |  ||   || |   | |||  |||| ||         |  |       
ACTGACACTAAGAAGATATCTGCAACTTCAATATTTTTTGAGACAATGCCTTACAGATTGGATGAAAGCACTGGATTGATTGATTACGATCAGgtcatt---ttcctccccgttctagtttatagatacacatattaagcatggcgagcaat--aatttgttg--ttttttgcattttagccaaaaaaaagagaagggtt

upper sequence: GLYMA14G36280.1 (Glycine max), 5'ss of exon 7
lower sequence: AT5G26780.3 (Arabidopsis thaliana), 5'ss of exon 7
ACTGACACCAAGAAGATATCGGCTGTATCTATATTCTTTGAAACAATGCCATACAGATTGAATGAGAGCACTGGTTATATCGATTATGACCAGgtaggtaggt-----accattgtattctgtgttgtggatattctttctt-atcaaagagaatcttttaagcagtcggactgtttctatttcagttgctgttcactg--------------------------------------------------------------------
|||||||| ||||| |||||||||||||| || || ||||| |||||||||||||||||| |||||| ||||||||| || |||||||||||||| |||  ||      |||   ||   |      |  | ||||| |||| ||| || | |  |  || ||   | ||  |  | |        ||   ||| || |                                                                    
ACTGACACGAAGAAAATATCGGCTGTATCCATCTTTTTTGAGACAATGCCATACAGATTGGATGAGAACACTGGTTACATTGATTATGACCAGgttggttagttcatagccagcttagcttaatgcttcaacattctatctttatccaatata--ccattgagatatgggtttaatacatacaagcttttcgtttacggttcttatgttaagtaattgaacagtttttaaaccaaagtttatttatttgtgatacaataatttgcag

upper sequence: GLYMA14G36280.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv18s0001g07960.t01 (Vitis vinifera), 5'ss of exon 7
ACTGACACCAAGAAGATATCGGCTGTATCTATATTCTTTGAAACAATGCCATACAGATTGAATGAGAGCACTGGTTATATCGATTATGACCAGgtaggtaggtaccattgtat-tctgtgttgtggatattctttct---tatcaaagagaatcttttaagcagtcggactgtttctatttcagttgctgttcactg
|| ||||||||||||||||| ||||| |||||||| ||||| |||||||||||||||||| |||| |  ||||| ||||| || |||||||||||   |    | |  | | | ||| | |         ||| |||   |||| | |  | |  ||  |   |  | |    |  |||    | | |  ||    |
ACCGACACCAAGAAGATATCTGCTGTGTCTATATTTTTTGAGACAATGCCATACAGATTGGATGAAAAAACTGGATATATTGACTATGACCAGgtgcatttacatctctctctctctctctctctctctctctctctatctatctatggaagttcttccaattgatgcaaatatggtat----gctaccatttttag

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|192312199|gb|FK003920.1|FK003920
EST:     CAATGCCATACAGATTGAATGAGAGCACTGGTTATATCGATTATGACCAG                         TTGGAGAAAAGTGCAGCACTTTTTAGGCCAAAATTAATAGTTGCTGGTGCT
genomic: CAATGCCATACAGATTGAATGAGAGCACTGGTTATATCGATTATGACCAGgtaggtaggt ... atatccgcagTTGGAGAAAAGTGCAGCACTTTTTAGGCCAAAATTAATAGTTGCTGGTGCT
EST: gi|151396057|gb|EV265934.1|EV265934
EST:     CAATGCCATACAGATTGAATGAGAGCACTGGTTATATCGATTATGACCAG                         TTGGAGAAAAGTGCAGCACTTTTTAGGCCAAAATTAATAGTTGCTGGTGCT
genomic: CAATGCCATACAGATTGAATGAGAGCACTGGTTATATCGATTATGACCAGgtaggtaggt ... atatccgcagTTGGAGAAAAGTGCAGCACTTTTTAGGCCAAAATTAATAGTTGCTGGTGCT
EST: gi|19348549|gb|BM893081.1|BM893081
EST:     ATCGATTATGACCAG                         TTGGAGAAAAGTGCAGCACTTTTTAGGCCAAAATTAATAGTTGCTGGTGCT
genomic: ATCGATTATGACCAGgtaggtaggt ... atatccgcagTTGGAGAAAAGTGCAGCACTTTTTAGGCCAAAATTAATAGTTGCTGGTGCT
EST: gi|27426205|gb|CA937725.1|CA937725
EST:     CAATGCCATACAGATTGAATGAGAGCACTGGTTATATCGATTATGACCAG                         G
genomic: CAATGCCATACAGATTGAATGAGAGCACTGGTTATATCGATTATGACCAGgtaggtaggt ... atatccgcag-
EST: gi|27426205|gb|CA937725.1|CA937725
EST:     CAATGCCATACAGATTGAATGAGAGCACTGGTTATATCGATTATGACCAG                         G
genomic: CAATGCCATACAGATTGAATGAGAGCACTGGTTATATCGATTATGACCAGgtaggtaggt ... atatccgcag-
EST: gi|192312198|gb|FK003919.1|FK003919
EST:     CAATGCCATACAGATTGAATGAGAGCACTGGTTATATCGATTATGACCAG                         TTGGAGAAAAGTGCAGCACTTTTTAGGCCAAAATTAATAGTTGCTGGTGCT
genomic: CAATGCCATACAGATTGAATGAGAGCACTGGTTATATCGATTATGACCAGgtaggtaggt ... atatccgcagTTGGAGAAAAGTGCAGCACTTTTTAGGCCAAAATTAATAGTTGCTGGTGCT
EST: gi|209724640|gb|BW651425.1|BW651425
EST:     CAATGCCATACAGATTGAATGAGAGCACTGGTTATATCGATTATGACCAG                         TTGGAGAAAAGTGCAGCACTTTTTAGGCCAAAATTAATAGTTGCTGGTGCT
genomic: CAATGCCATACAGATTGAATGAGAGCACTGGTTATATCGATTATGACCAGgtaggtaggt ... atatccgcagTTGGAGAAAAGTGCAGCACTTTTTAGGCCAAAATTAATAGTTGCTGGTGCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ACTGACACCAAGAAGATATCGGCTGTATCTATATTCTTTGAAACAATGCCATACAGATTGAATGAGAGCACTGGTTATATCGATTATGACCAGgtaggtaggtaccattgtattctgtgttgtggatattctttcttatcaaagagaatcttttaagcagtcggactgtttctatttcagttgctgttcactg

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA