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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

tatgttttgcattagtctgatgttttattaatgcttatttgttctttaatcagtggcttcacataaattaccaatttacagaTTTAGTTGTGCGATCTCATGAAGTAAAGGACGAGGGTTATGAGATTGAACATGATGGTAAACTCATAACTGTGTTTTCTGCTCCAAATTACTGTGACCAG

Basic information

species Glycine max
transcript GLYMA18G12440.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G12440.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os05g11550.1 (Oryza sativa), 3'ss of exon 10
--------------------------------------------------------tatgttttgcattagtctgatgttttattaatgcttatttgttc--tttaatcagtggcttcacataaattaccaatttacagaTTTAGTTGTGCGATCTCATGAAGTAAAGGACGAGGGTTATGAGATTGAACATGATGGTAAACTCATAACTGTGTTTTCTGCTCCAAATTACTGTGACCAG
                                                        | |  |||| | |||| | | |   |  |  || |   |||     ||   ||| |   || |  |   | |  |  || ||||  | ||||| ||||| |||||||| || || || || ||||| |||||||||||||| || || ||||| ||||| |||||||| ||||| || ||||| 
gtatgaagtaaaatttgttaaaaagtttccggttggaattggatctttcaaacatctgttatttgtaatagtgtcaagagcttgttttgttcccttggaaaattatttcacttatttgatttgcctgatgatgttccagACCTTGTTGTTCGATCCCATGAAGTGAAAGATGAAGGCTATGAAATTGAACATGATGGAAAGCTTATAACGGTGTTCTCTGCTCCCAATTATTGCGACCA-

upper sequence: GLYMA18G12440.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G126435_T02 (Zea mays), 3'ss of exon 9
-tatgttttgcattagtctgat-gttttattaatgcttatttgttctttaatcagtggcttcacataaattaccaatttacagaTTTAGTTGTGCGATCTCATGAAGTAAAGGACGAGGGTTATGAGATTGAACATGATGGTAAACTCATAACTGTGTTTTCTGCTCCAAATTACTGTGACCAG
 ||  | |||    |     ||   |  |  |    |||   ||   ||  |       ||    |   | |  | ||  ||||| |  |||| || ||||||||||||||||| || ||  |||| |||||||||||||| || || ||||| || || ||||| || |||||||||||||| 
gtaaatattgtgggatctcaattactgaaggagaatttacacgtgaatttttttcatcttttgttttcttaatgagttgccagATCTTATTGTCCGGTCTCATGAAGTAAAGGATGAAGGCCATGAAATTGAACATGATGGAAAGCTTATAACAGTCTTCTCTGCGCCTAATTACTGTGACCA-

upper sequence: GLYMA18G12440.1 (Glycine max), 3'ss of exon 10
lower sequence: AT2G42810.2 (Arabidopsis thaliana), 3'ss of exon 11
--------tatgttttgcattagtctgatgtt--ttattaatgcttatttgttctttaatcagtggcttcacataaattacca--attt--acagaTTTAGTTGTGCGATCTCATGAAGTAAAGGACGAGGGTTATGAGATTGAACATGATGGTAAACTCATAACTGTGTTTTCTGCTCCAAATTACTGTGACCAG
          ||| |||   |  || |   ||  ||    |  || || | | ||| |   ||    || || |  |||  ||  |||    |||||||  | || || || ||||||||||| || || ||||||||| |||||||||| ||||||||||||||||| || ||||| |||||||||||||| || 
gttagttcactgtcttgttattatcggggtttggtttcgcaaactaatatttacttgagatagcta-ttaacttgcattttcatgattgtggcagATTTGTTGGTCCGGTCACATGAAGTAAAAGATGAAGGTTATGAGGTTGAACATGACGGTAAACTCATAACTGTCTTCTCTGCGCCAAATTACTGTGATCA-

upper sequence: GLYMA18G12440.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv12s0142g00720.t01 (Vitis vinifera), 3'ss of exon 4
-tatgttttgcattagtctgatgttttattaatgcttatttgttctttaa-tcagtggcttcacataaattaccaattt-acagaTTTAGTTGTGCGATCTCATGAAGTAAAGGACGAGGGTTATGAGATTGAACATGATGGTAAACTCATAACTGTGTTTTCTGCTCCAAATTACTGTGACCAG
 ||  || |  | || | || | | ||||| ||| | || | || || || ||| |  |||||   | ||  |   ||| ||||||||||||||||||||||||||||||||||| || || |||||||||||||||||||| || || || |||||||||||||||||||| || ||||| || 
gtac-ttctctactaatttg-tatattatttatggtcatattttgttgaagtcactctcttcatgcacatggcttgtttgacagATTTAGTTGTGCGATCTCATGAAGTAAAGGATGAAGGCTATGAGATTGAACATGATGGCAAGCTTATTACTGTGTTTTCTGCTCCAAACTATTGTGATCA-

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|7925584|gb|AW831610.1|AW831610
EST:     TCTTTTGGTGCAGATGTTACAAAAAGGTTTTTGCAGGAAAATAATTTAGA                         TTTAGTTGTGCGATCTCATGAAGTAAAGGACGAGGGTTATGAGATTGAACA
genomic: TCTTTTGGTGCAGATGTTACAAAAAGGTTTTTGCAGGAAAATAATTTAGGtatgttttgc ... aatttacagaTTTAGTTGTGCGATCTCATGAAGTAAAGGACGAGGGTTATGAGATTGAACA
EST: gi|58017779|gb|CX704521.1|CX704521
EST:     TCTTTTGGTGCAGATGTTACAAAAAGGTTTTTGCAGGAAAATAATTTAGA                         TTTAGTTGTGCGATCTCATGAAGTAAAGGACGAGGGTTATGAGATTGAACA
genomic: TCTTTTGGTGCAGATGTTACAAAAAGGTTTTTGCAGGAAAATAATTTAGGtatgttttgc ... aatttacagaTTTAGTTGTGCGATCTCATGAAGTAAAGGACGAGGGTTATGAGATTGAACA
EST: gi|22929012|gb|BU546151.1|BU546151
EST:     TCTTTTGGTGCAGATGTTACAAAAAGGTTTTTGCAGGAAAATAATTTAGA                         TTTAGTTGTGCGATCTCATGAAGTAAAGGACGAGGGTTATGAGATTGAACA
genomic: TCTTTTGGTGCAGATGTTACAAAAAGGTTTTTGCAGGAAAATAATTTAGGtatgttttgc ... aatttacagaTTTAGTTGTGCGATCTCATGAAGTAAAGGACGAGGGTTATGAGATTGAACA
EST: gi|58024761|gb|CX711502.1|CX711502
EST:     TCTTTTGGTGCAGATGTTACAAAAAGGTTTTTGCAGGAAAATAATTTAGA                         TTTAGTTGTGCGATCTCATGAAGTAAAGGACGAGGGTTATGAGATTGAACA
genomic: TCTTTTGGTGCAGATGTTACAAAAAGGTTTTTGCAGGAAAATAATTTAGGtatgttttgc ... aatttacagaTTTAGTTGTGCGATCTCATGAAGTAAAGGACGAGGGTTATGAGATTGAACA
EST: gi|23730805|gb|BU763508.1|BU763508
EST:     TCTTTTGGTGCAGATGTTACAAAAAGGTTTTTGCAGGAAAATAATTTAGA                         TTTAGTTGTGCGATCTCTTGAAGTAAAGGACGAGGGTTATGAGATTGAACA
genomic: TCTTTTGGTGCAGATGTTACAAAAAGGTTTTTGCAGGAAAATAATTTAGGtatgttttgc ... aatttacagaTTTAGTTGTGCGATCTCATGAAGTAAAGGACGAGGGTTATGAGATTGAACA
EST: gi|58021121|gb|CX707863.1|CX707863
EST:     TCTTTTGGTGCAGATGTTACAAAAAGGTTTTTGCAGGAAAATAATTTAGA                         TTTAGTTGTGCGATCTCATGAAGTAAAGGACGAGGGTTATGAGATTGAACA
genomic: TCTTTTGGTGCAGATGTTACAAAAAGGTTTTTGCAGGAAAATAATTTAGGtatgttttgc ... aatttacagaTTTAGTTGTGCGATCTCATGAAGTAAAGGACGAGGGTTATGAGATTGAACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttaatgcttatttgttctttaatcagtggcttcacataaattaccaatttacagaTTTAGTTGTGCGATCTCATGAAGTAAAGGACGAGGGTTATGAGATTGAACATGATGGTAAACTCATAACTGTGTTTTCTGCTCCAAATTACTGTGACCAG
       ttatttgttctttaat  TA-rich tract