Sequence
atgc intronic sequence ATGC exonic sequenceGTATGATGATACAAATCCTGAAGCAGAAAAGAAAGAGTATATTGATCACATTGAAGAAATTGTTCAGTGGATGGGTTGGAAACCATTCAAGgtatgttggtttgttttgtagcacctcttgcctcatgtgattgttccaacttaactatttaggtgtttaacagctttgtgataatatttgcag
Basic information
species | Glycine max |
transcript | GLYMA10G41920.2 |
intron # | 11 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G41920.1 (Glycine max), 5'ss of exon 11
lower sequence: AT1G25350.2 (Arabidopsis thaliana), 5'ss of exon 11
GTATGATGATACAAATCCTGAAGCAGAAAAGAAAGAGTATATTGATCACATTGAAGAAATTGTTCAGTGGATGGGTTGGAAACCATTCAAGgtatgttggtttgttttgtagcacctcttgcctcatgtgattgttccaacttaactatttaggtgtttaacagctttgtgataatatttgcag
|||||||||||||||||| || ||||||||| ||||||||||| |||| ||||||||||||||| |||||||||||||| |||| |||||||||| || | |||||| | | | | | | ||| || | || | | | ||||| || || | |
GTATGATGATACAAATCCAGAGGCAGAAAAGGAAGAGTATATTAATCATATTGAAGAAATTGTTAAGTGGATGGGTTGGGAACCCTTCAAGgtattttcaat-gttttgcacgaatagctcattgttattattattgtgtttgaattcatctgacgtttatcaatctttttttttag-------
upper sequence: GLYMA10G41920.1 (Glycine max), 5'ss of exon 11
lower sequence: Vv01s0011g03740.t01 (Vitis vinifera), 5'ss of exon 11
GTATGATGATACAAATCCTGAAGCAGAAAAGAAAGAGTATATTGATCACATTGAAGAAATTGTTCAGTGGATGGGTTGGAAACCATTCAAGgtatgttggtttgttttgtagcacctcttgcctcatgtgattgttccaacttaactatttaggtgtttaacagctttgtgataatatttgcag
||||||||| ||||| |||||||| ||||||||||| ||||||||||| ||||| |||||||| | ||||||||||||| |||| |||||||| | | || | || | ||| ||| ||||| ||| ||| || | | | | | | | ||
GTATGATGACACAAACCCTGAAGCTGAAAAGAAAGAATATATTGATCATATTGACGAAATTGTCCGGTGGATGGGTTGGGAACCTTTCAAGgtgccattttcagtcct-ta----ttggtgcactatg-aattgt--caagacaacatttgatatttctca-aattgtgcag------------
upper sequence: GLYMA10G41920.1 (Glycine max), 5'ss of exon 11
lower sequence: Vv15s0021g01230.t01 (Vitis vinifera), 5'ss of exon 11
GTATGATGATACAAATCCTGAAGCAGAAAAGAAAGAGTATATTGATCACATTGAAGAAATTGTTCAGTGGATGGGTTGGAAACCATTCAAGgtatgttggtttgttttgtagcacctcttgcctcatgtgattgttccaacttaactat-ttaggtgtttaacagctttgtgataatatttgcag
|| ||| || ||||| || ||||| ||||||||||||||||||||||| ||||||||||| || || |||||||||||| |||| ||||||||| | ||| | | ||| | | || | | || | | | | | || | | | || || || ||
GTTTGACGACACAAACCCAGAAGCTGAAAAGAAAGAGTATATTGATCATATTGAAGAAATCGTCCAATGGATGGGTTGGGAACCTTTCAAGgta---taatttatgatctag-atttaatgtcataggttgtgcctttctttgggcaacatttgatatctattggcattttgcag----------
upper sequence: GLYMA10G41920.1 (Glycine max), 5'ss of exon 11
lower sequence: EFJ20630 (Selaginella moellendorffii), 5'ss of exon 10
GTATGATGATACAAATCCTGAAGCAGAAAAGAAAGAGTATATTGATCACATTGAAGAAATTGTTCAGTGGATGGGTTGGAAACCATTCAAGgtatgttggtttgttttgtagcacctcttgcctcatgtgattgttccaacttaactatttaggtgtttaacagctttgtgataatatttgcag
|| ||| ||||| ||||| || || ||||| |||| |||||||| ||||| |||| ||||| ||||||||||||||||||| |||||||| || | || | | ||| || || | || | | | || |
GTTTGACGATACGAATCCAGATGCCGAAAAAGAAGAATATATTGAACACATAAAAGAGATTGTAGAGTGGATGGGTTGGAAACCGTTCAAGgt------------ctttaaacatttaattcctgataggagtttttaacgtcggttcttgcag------------------------------
upper sequence: GLYMA10G41920.1 (Glycine max), 5'ss of exon 11
lower sequence: EFJ32802 (Selaginella moellendorffii), 5'ss of exon 10
GTATGATGATACAAATCCTGAAGCAGAAAAGAAAGAGTATATTGATCACATTGAAGAAATTGTTCAGTGGATGGGTTGGAAACCATTCAAGgtatgttggtttgttttgtagcacctcttgcctcatgtgattgttccaacttaactatttaggtgtttaacagctttgtgataatatttgcag
|| ||||||||| ||||| || || ||||| |||| |||||||| ||||| |||| ||||| ||||||||||||||||||| |||||||| || | || | | ||| || || | || | | | || |
GTTTGATGATACGAATCCAGATGCCGAAAAAGAAGAATATATTGAACACATAAAAGAGATTGTAGAGTGGATGGGTTGGAAACCGTTCAAGgt------------ctttaaacatttaattcctgataagagtttttaatgtcggttcttgcag------------------------------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|254327577|gb|GR837186.1|GR837186EST: GGAAACCATTCAAG ATTACTTACACAAGTGATTACTTCCAAGAATTGTACGAATTAGCAGTGGAG
genomic: GGAAACCATTCAAGgtatgttggt ... atatttgcagATTACTTACACAAGTGATTACTTCCAAGAATTGTACGAATTAGCAGTGGAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTATGATGATACAAATCCTGAAGCAGAAAAGAAAGAGTATATTGATCACATTGAAGAAATTGTTCAGTGGATGGGTTGGAAACCATTCAAGgtatgttggtttgttttgtagcacctcttgcctcatgtgattgttccaacttaactatttaggtgtttaacagctttgtgataatatttgcag
- - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA