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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aacacagttgcggtgtttatgttggtcaattttgacaaagctttccttacccctaatgatgacccttgctcctaacagacattatctctggcattttcagACACTGTCCTCTGGTTTGGATGATTATCCACGAGCTTCACACCCAAGTGAAGATGAACGCCACTTGGATCTTAGATGTTGGATGTTACTTGCAGCAGACT

Basic information

species Glycine max
transcript GLYMA05G27900.2
intron # 14
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G27900.2 (Glycine max), 3'ss of exon 14
lower sequence: Vv01s0010g03300.t01 (Vitis vinifera), 3'ss of exon 14
aacacagttgcggtgtttatgtt-ggtcaattttgacaaagctttccttacccctaatgatgacccttgctcctaacagacattatctctggcattttcagACACTGTCCTCTGGTTTGGATGATTATCCACGAGCTTCACACCCAAGTGAAGATGAACGCCACTTGGATCTTAGATGTTGGATGTTACTTGCAGCAGACT
|  |   |  |  |||| ||||| |||    | |   ||    ||  || |   ||  ||||    |        |  |||||| | ||   |||| | |||||||||||||||| ||||| ||||| |||||||| |||||||| |||| ||| || | |||  ||||||||||||| |||||| | |||||||| || |
actatgttatcaatgtt-atgttaggttgggtatagaaagatattttttccagatagagatggttatgctgttgcattgacattgtttcgaacattcttagACACTGTCCTCTGGCTTGGACGATTACCCACGAGCATCACACCCTAGTGGAGAAGAGCACCATGTGGATCTTAGATGCTGGATGCTTCTTGCAGCTGAAT

upper sequence: GLYMA05G27900.2 (Glycine max), 3'ss of exon 14
lower sequence: EFJ24054 (Selaginella moellendorffii), 3'ss of exon 15
aacacagttgcggtgtttatgttggtcaattttgacaaagctttccttacccctaatgatgacccttgctcctaacagacattat---ctctggcattttcagACACTGTCCTCTGGTTTGGATGATTATCCACGAGCTTCACACCCAAGTGAAGATGAACGCCACTTGGATCTTAGATGTTGGATGTTACTTGCAGCAGACT
                                                     ||   | |   | | ||  | |   ||  | |   | | ||| |  | |||   |||| |||||||||||||| ||||||||||||||||| |||||||  ||||| || ||| | ||| |  | || ||||||    | |||||  | |
----------------------------------------------------gtaggcacgtttcattctg-tgattaacgctctagacaccggcttcgttagAGTTTGTCGTCTGGTTTGGATGACTATCCACGAGCTTCACATCCAAGTGCTGATGAGCGACACGTTGATTTACGTTGCTGGATGGCCTTGGCAGCGAAAT

upper sequence: GLYMA05G27900.2 (Glycine max), 3'ss of exon 14
lower sequence: EFJ35102 (Selaginella moellendorffii), 3'ss of exon 15
aacacagttgcggtgtttatgttggtcaattttgacaaagctttccttacccctaatgatgacccttgctcctaacagacattat---ctctggcattttcagACACTGTCCTCTGGTTTGGATGATTATCCACGAGCTTCACACCCAAGTGAAGATGAACGCCACTTGGATCTTAGATGTTGGATGTTACTTGCAGCAGACT
                                                     ||   | |   | | ||  | |   ||  | |   | | ||| |  | |||   |||| |||||||||||||| |||||||| |||||||| |||||||  ||||| || ||| | ||| |  | || ||||||    | |||||  | |
----------------------------------------------------gtaggcacgtttcattctg-tgattaacgctctagacaccggcttcgttagAGTTTGTCGTCTGGTTTGGATGACTATCCACGGGCTTCACATCCAAGTGCTGATGAGCGACACGTTGATTTACGTTGCTGGATGGCCTTGGCAGCGAAAT

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|193533398|gb|FK493750.1|FK493750
EST:     ACGATAGGACAATGCGTGAAGTAAATCCTAAG                         ACACTGTCCTCTGGTTTGGATGATTATCCACGAGCTTCACACCCAAGTGAA
genomic: ACGATAGGACAATGCGTGAAGTAAATCCTAAGgttctaatat ... gcattttcagACACTGTCCTCTGGTTTGGATGATTATCCACGAGCTTCACACCCAAGTGAA
EST: gi|208307075|gb|GE103239.1|GE103239
EST:     ACGATAGGACAATGCGTGAAGTAAATCCTAAG                         ACACTGTCCTCTGGTTTGGATGATTATCCACGAGCTTCACACCCAAGTGAA
genomic: ACGATAGGACAATGCGTGAAGTAAATCCTAAGgttctaatat ... gcattttcagACACTGTCCTCTGGTTTGGATGATTATCCACGAGCTTCACACCCAAGTGAA
EST: gi|208195868|gb|GD994429.1|GD994429
EST:     CGGGACGATAGGACAATGCGTGAAGTAAATCCTAAG                         ACACTGTCCTCTGGTTTGGATGATTATCCACGAGCTTCACACCCAAGTGAA
genomic: CGGGACGATAGGACAATGCGTGAAGTAAATCCTAAGgttctaatat ... gcattttcagACACTGTCCTCTGGTTTGGATGATTATCCACGAGCTTCACACCCAAGTGAA
EST: gi|207696288|gb|GD677783.1|GD677783
EST:     ACGATAGGACAATGCGTGAAGTAAATCCTAAG                         ACACTGTCCTCTGGTTTGGATGATTATCCACGAGCTTCACACCCAAGTGAA
genomic: ACGATAGGACAATGCGTGAAGTAAATCCTAAGgttctaatat ... gcattttcagACACTGTCCTCTGGTTTGGATGATTATCCACGAGCTTCACACCCAAGTGAA
EST: gi|207806471|gb|GD777436.1|GD777436
EST:     ACGATAGGACAATGCGTGAAGTAAATCCTAAG                         ACACTGTCCTCTGGTTTGGATGATTATCCACGAGCTTCACACCCAAGTGAA
genomic: ACGATAGGACAATGCGTGAAGTAAATCCTAAGgttctaatat ... gcattttcagACACTGTCCTCTGGTTTGGATGATTATCCACGAGCTTCACACCCAAGTGAA
EST: gi|208126411|gb|GD925655.1|GD925655
EST:     CGGGACGATAGGACAATGCGTGAAGTAAATCCTAAG                         ACACTGTCCTCTGGTTTGGATGATTATCCACGAGCTTCACACCCAAGTGAA
genomic: CGGGACGATAGGACAATGCGTGAAGTAAATCCTAAGgttctaatat ... gcattttcagACACTGTCCTCTGGTTTGGATGATTATCCACGAGCTTCACACCCAAGTGAA
EST: gi|208252611|gb|GE046147.1|GE046147
EST:     ACGATAGGACAATGCGTGAAGTAAATCCTAAG                         ACACTGTCCTCTGGTTTGGATGATTATCCACGAGCTTCACACCCAAGTGAA
genomic: ACGATAGGACAATGCGTGAAGTAAATCCTAAGgttctaatat ... gcattttcagACACTGTCCTCTGGTTTGGATGATTATCCACGAGCTTCACACCCAAGTGAA
EST: gi|193566450|gb|FK522437.1|FK522437
EST:     ACGATAGGACAATGCGTGAAGTAAATCCTAAG                         ACACTGTCCTCTGGTTTGGATGATTATCCACGAGCTTCACACCCAAGTGAA
genomic: ACGATAGGACAATGCGTGAAGTAAATCCTAAGgttctaatat ... gcattttcagACACTGTCCTCTGGTTTGGATGATTATCCACGAGCTTCACACCCAAGTGAA
EST: gi|13480605|gb|BG509948.1|BG509948
EST:     ACTATTGGCACGGACGGGACGATAGGACAATGCGTGAAGTAAATCCTAAG                         ACACTGTCCTCTGGTTTGGATGATTATCCACGAGCTTCACACCCAAGTGAA
genomic: ACTATTGGCACGGACGGGACGATAGGACAATGCGTGAAGTAAATCCTAAGgttctaatat ... gcattttcagACACTGTCCTCTGGTTTGGATGATTATCCACGAGCTTCACACCCAAGTGAA
EST: gi|208089246|gb|GD886507.1|GD886507
EST:     GACGATAGGACAATGCGTGAAGTAAATCCTAAG                         ACACTGTCCTCTGGTTTGGATGATTATCCACGAGCTTCACACCCAAGTGAA
genomic: GACGATAGGACAATGCGTGAAGTAAATCCTAAGgttctaatat ... gcattttcagACACTGTCCTCTGGTTTGGATGATTATCCACGAGCTTCACACCCAAGTGAA
EST: gi|193442359|gb|FK407344.1|FK407344
EST:     CGGGACGATAGGACAATGCGTGAAGTAAATCCTAAG                         ACACTGTCCTCTGGTTTGGATGATTATCCACGAGCTTCACACCCAAGTGAA
genomic: CGGGACGATAGGACAATGCGTGAAGTAAATCCTAAGgttctaatat ... gcattttcagACACTGTCCTCTGGTTTGGATGATTATCCACGAGCTTCACACCCAAGTGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttacccctaatgatgacccttgctcctaacagacattatctctggcattttcagACACTGTCCTCTGGTTTGGATGATTATCCACGAGCTTCACACCCAAGTGAAGATGAACGCCACTTGGATCTTAGATGTTGGATGTTACTTGCAGCAGACT
                        tcctaac  putative branch site (score: 1)
                                              cattttc  putative PPT
        taatgat  TA-rich tract