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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAGACACGGTGATCTTCTTAACAAATATCTTTACTTGAGTGGTCGAGTTGACATGAAACAAATTGAAAAGACAATTCAGTACCTTATTGGGTCTGGAATGgtaagatcctatacaactgtagtctattttggtcttccgcaatggtagttttattaatgaatcacacaatcatgcaatgtcaaagaaactcttgctaccc...

Basic information

species Glycine max
transcript GLYMA02G15600.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G15600.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv05s0094g00550.t01 (Vitis vinifera), 5'ss of exon 1
CAGACACGGTGATCTTCTTAACAAATATCTTTACTTGAGTGGTCGAGTTGACATGAAACAAATTGAAAAGACAATTCAGTACCTTATTGGGTCTGGAATGgtaagatccta--tacaactgtagtctattttggtcttccgcaat--ggtagttttattaatgaatcacacaatcatgcaatgtcaaagaaactcttgctaccc
||| ||||||| |||||||| || ||||| || || ||| |||| |||||||||||||| || ||||| |||||||| | |||||| |||||||||| |||| || |||| | | |||| | ||| | | | | | | | | | || | ||| | | | || || ||
CAGGGACGGTGACCTTCTTAATAAGTATCTCTATCTGTCTGGAAGAGTAGACATGAAACAAATCGAGAAGACGATTCAGTATTTGATTGGGGCTGGAATGgtgagattcttgctacatgcccttttttttttttttttctgtagtcagtcacaatcttcactagttcttgaactcaagttcttcttctccatcttttcatag--

upper sequence: GLYMA02G15600.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv05s0094g00580.t01 (Vitis vinifera), 5'ss of exon 2
CAGACACGGTGATCTTCTTAACAAATATCTTTACTTGAGTGGTCGAGTTGACATGAAACAAATTGAAAAGACAATTCAGTACCTTATTGGGTCTGGAATGgtaagatcctatacaactgtagtctattttggtcttccgcaatggtagttttattaatgaatcacacaatcatgcaatgtcaaagaaactcttgctaccc--------
||| |||||||| |||||||| || ||||| || || ||| |||| |||||||||||||| || ||||| |||||||| | |||||| |||||||||| |||| || | | || | | |||| | || ||||| | | | | ||| | | |||| | | | |
CAGGCACGGTGACCTTCTTAATAAGTATCTCTATCTGTCTGGAAGAGTAGACATGAAACAAATCGAGAAGACGATTCAGTATTTGATTGGGGCTGGAATGgtgagattct-tgctacatgctttttttttttttttttttttctgtagtc--aatcacaatcttcactagttcttgaactcaagttcttcttctccatcttttcatag

upper sequence: GLYMA02G15600.1 (Glycine max), 5'ss of exon 2
lower sequence: PP1S157_50V6.1 (Physcomitrella patens), 5'ss of exon 3
CAGACACGGTGATCTTCTTAACAAATATCTTTACTTGAGTGGTCGAGTTGACATGAAACAAATTGAAAAGACAATTCAGTACCTTATTGGGTCTGGAATGgtaagatcctataca---actgtagtctattttggtcttccgcaatggtagtttt--attaatgaatc-acacaa-tcatgcaatgtcaaagaaactcttgctaccc
| | ||||| || || || ||||| || | ||||||| || ||||| ||||||| |||||| || ||||||||||||||| | ||||| ||||| ||||||||| | || || || ||| || | || | || | || || ||| || ||| | | || | ||| ||
CCGTCACGGAGACCTGCTGAACAAGTACTTGTACTTGACAGGGCGAGTGGACATGAGACAAATCGAGAAGACAATTCAGTACTTGATTGGATCTGGGATGgtaagaagccatgttttcaccctaaaaaattatgatgctcgctgaatgtgtctgccagctactgtatctacgcaaattaaattgcgt-acggaagttcgaa------

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|15287505|gb|BI471396.1|BI471396
EST:     ACATGAAACAAATTGAAAAGACAATTCAGTACCTTATTGGGTCTGGAATG                         GATCCTCGAACCGAGAACAGCCCCTACCTTGGTTTCATTTACACTTCATTT
genomic: ACATGAAACAAATTGAAAAGACAATTCAGTACCTTATTGGGTCTGGAATGgtaagatcct ... tgatggatagGATCCTCGAACCGAGAACAGCCCCTACCTTGGTTTCATTTACACTTCATTT
EST: gi|9901530|gb|BE610498.1|BE610498
EST:     ACATGAAACAAATTGAAAAGACAATTCAGTACCTTATTGGGTCTGGAATG                         GATCCTCGAACCGAGAACAGCCCCTACCTTGGTTTCATTTACACTTCATTT
genomic: ACATGAAACAAATTGAAAAGACAATTCAGTACCTTATTGGGTCTGGAATGgtaagatcct ... tgatggatagGATCCTCGAACCGAGAACAGCCCCTACCTTGGTTTCATTTACACTTCATTT
EST: gi|27426453|gb|CA937973.1|CA937973
EST:     ACATGAAACAAATTGAAAAGACAATTCAGTACCTTATTGGGTCTGGAATG                         GATCCTCGAACCGAGAACAGCCCCTACCTTGGTTTCATTTACACTTCATTT
genomic: ACATGAAACAAATTGAAAAGACAATTCAGTACCTTATTGGGTCTGGAATGgtaagatcct ... tgatggatagGATCCTCGAACCGAGAACAGCCCCTACCTTGGTTTCATTTACACTTCATTT
EST: gi|120533729|gb|EH261862.1|EH261862
EST:     ACATGAAACAAATTGAAAAGACAATTCAGTACCTTATTGGGTCTGGAATG                         GATCCTCGAACCGAGAACAGCCCCTACCTTGGTTTCATTTACACTTCATTT
genomic: ACATGAAACAAATTGAAAAGACAATTCAGTACCTTATTGGGTCTGGAATGgtaagatcct ... tgatggatagGATCCTCGAACCGAGAACAGCCCCTACCTTGGTTTCATTTACACTTCATTT
EST: gi|298179192|gb|HO027663.1|HO027663
EST:     ACATGAAACAAATTGAAAAGACAATTCAGTACCTTATTGGGTCTGGAATG                         GATCCTCGAACCGAGAACAGCCCCTACCTTGGTTCCATTTACACTTCATTT
genomic: ACATGAAACAAATTGAAAAGACAATTCAGTACCTTATTGGGTCTGGAATGgtaagatcct ... tgatggatagGATCCTCGAACCGAGAACAGCCCCTACCTTGGTTTCATTTACACTTCATTT

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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CAGACACGGTGATCTTCTTAACAAATATCTTTACTTGAGTGGTCGAGTTGACATGAAACAAATTGAAAAGACAATTCAGTACCTTATTGGGTCTGGAATGgtaagatcctatacaactgtagtctattttggtcttccgcaatggtagttttattaatgaatcacacaatcatgcaatgtcaaagaaactcttgctaccc

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - caaagaaa