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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtatcatgttttttcccccctcttttctgttgctttatgaatagatttacagagaagtgaaggaaactaagttctcatgtggtcctcttccttacagGATAAGAAATAATTTAACTCAGTTGTATGCCAAAGACATCACTCCTGATGATAAGCAGGAACTTGACGAGGCTCTACAGAGGGAG

Basic information

species Glycine max
transcript GLYMA20G09810.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G09810.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G473001_T01 (Zea mays), 3'ss of exon 2
gtttgtatcatgttttttcccccctcttttctgttgctttatgaatagatttacagagaagtgaaggaaactaagttctcatgtggtcctcttccttacagGATAAGAAATAATTTAACTCAGTTGTATGCCAAAGACATCACTCCTGATGATAAGCAGGAACTTGACGAGGCTCTACAGAGGGAG
                        |     |   ||| || | | | ||  | || |     |        | | |  | ||       | ||| |  ||||||| | ||   |||   |||  | ||  | ||||| |||||||| |||||||||||||||||||| |||||||| || || |||
-----------------gttagtttgccaaccagtgcattgt-agttgacatgcacaacttcgttcagcctttaatcttgatcccaa--tattcttatcagGATACGCAACTGTTTGGTTCAACTCTACTCAAAAGATATCACTCCGGATGATAAGCAGGAACTTGATGAGGCTCTGCAAAGAGAG

upper sequence: GLYMA20G09810.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G473001_T02 (Zea mays), 3'ss of exon 2
gtttgtatcatgttttttcccccctcttttctgttgctttatgaatagatttacagagaagtgaaggaaactaagttctcatgtggtcctcttccttacagGATAAGAAATAATTTAACTCAGTTGTATGCCAAAGACATCACTCCTGATGATAAGCAGGAACTTGACGAGGCTCTACAGAGGGAG---------------
                        |     |   ||| || | | | ||  | || |     |        | | |  | ||       | ||| |  ||||||| | ||   |||   |||  | ||  | ||||| |||||||| |||||||||||||||||||| |||||||| || || |||               
-----------------gttagtttgccaaccagtgcattgt-agttgacatgcacaacttcgttcagcctttaatcttgatcccaa--tattcttatcagGATACGCAACTGTTTGGTTCAACTCTACTCAAAAGATATCACTCCGGATGATAAGCAGGAACTTGATGAGGCTCTGCAAAGAGAGGTACTTCTTTCAATC

upper sequence: GLYMA20G09810.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G110714_T01 (Zea mays), 3'ss of exon 2
gtttgtatcatgttttttcccccctcttttc-tgttgctttatgaat-agatttacagagaagtgaaggaaactaagttctcatgtggtcctcttccttacagGATAAGAAATAATTTAACTCAGTTGTATGCCAAAGACATCACTCCTGATGATAAGCAGGAACTTGACGAGGCTCTACAGAGGGAG
 |    |  |   |  |      |||   || |||||    ||   | | || | |       ||    | | |   ||| ||| ||    |      | ||||||||||||   |||||||||  | ||||| || ||||||||||| ||||| || ||||||||||| || || || || || |||
atgaaaagaaaagtaatatatttctcgagtcatgttgaaccatatgttatatgtgccatttgttgccttagattc--ttcacatttg-catttgaatgtgcagGATAAGAAACTGTTTAACTCAACTTTATGCAAAGGACATCACTCCAGATGAGAAACAGGAACTTGATGAAGCACTTCAAAGAGAG

upper sequence: GLYMA20G09810.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv19s0014g01390.t01 (Vitis vinifera), 3'ss of exon 2
gtttgta-tcatgttttttcccccctcttttctgttgctttatgaatagatttacagagaagtgaaggaaactaagttctcatgtggtcctcttccttacagGATAAGAAATAATTTAACTCAGTTGTATGCCAAAGACATCACTCCTGATGATAAGCAGGAACTTGACGAGGCTCTACAGAGGGAG
||||||| |||  |    |||  ||  |||  | ||||  ||| | |   | |         |         | |  |||| | |     |||||    ||||||  | ||   |||| | ||||| |||||||||||||| |||||||||||||||||||||||||| |||||||||||||| |||
gtttgtaatcaaat----tcctgcccttttgttcttgcactataattttttctctcctttttt---------tcacctctcttat----ttcttctactcagGATCCGGAACTGTTTAGCCCAGTTATATGCCAAAGACATTACTCCTGATGATAAGCAGGAACTTGATGAGGCTCTACAGAGAGAG

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|193518461|gb|FK476704.1|FK476704
EST:     GCTCATCCTACTCAATCTGTCCGTAGGTCTTTGCTTCAAAAACATGGAAG                         GATAAGAAATAATTTAACTCAGTTGTATGCCAAAGACATCACTCCTGATGA
genomic: GCTCATCCTACTCAATCTGTCCGTAGGTCTTTGCTTCAAAAACATGGAAGgtttgtatca ... ttccttacagGATAAGAAATAATTTAACTCAGTTGTATGCCAAAGACATCACTCCTGATGA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agatttacagagaagtgaaggaaactaagttctcatgtggtcctcttccttacagGATAAGAAATAATTTAACTCAGTTGTATGCCAAAGACATCACTCCTGATGATAAGCAGGAACTTGACGAGGCTCTACAGAGGGAG
                                        tcctcttccttac  CT-rich tract
                     aaactaa  TA-rich tract