Sequence
atgc intronic sequence ATGC exonic sequencegtaggtgtttgttctcgacctcattttaagttcttattttctgtgcctatcaattataggttttttgttggttaagttaaatttatttctattttatttttgctgacttgactcttttattttgtttcggtgtttgtttagCCAGTGGGAAAGCAGCAGAATTTGGTGCCCTAAAAGATGGCTATATGTTTGAGTGTACAACGGGTCTCTCAAGGAT
Basic information
species | Glycine max |
transcript | GLYMA02G12480.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G12480.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os01g66730.2 (Oryza sativa), 3'ss of exon 7
gtaggtgtttgttctcgacctcattttaagttcttattttctgtgcctatcaa-ttataggttttttgttggttaagttaaatttatttctattttatttttgctgacttgactcttttattttgtttcggtgtttgttt---agCCAGTGGGAAAGCAGCAGAATTTGGTGCCCTAAAAGATGGCTATATGTTTGAGTGTACAACGGGTCTCTCAAGGAT
| | ||| |||| || || | | || | || | ||| | | ||| | || | | | ||| ||| | || | | ||| ||| | |||||||||||| ||||||||| ||||||||||||||||||||||| | || || | || ||||
--------------------------------------------ccatttcaggctatactgttattat-gtttgaatttgtctaattattgtattagctctgttacttcaatatgaatatattgctgtggcttgtattttgcagCTACTGGGAAAGCAGCCGAATTTGGTCAACTAAAAGATGGCTATATGTTTGACACGTCTACTGGCTTGTCGCGGAT
upper sequence: GLYMA02G12480.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os01g47256.3 (Oryza sativa), 3'ss of exon 6
gtaggtgtttgttctcgacctcattttaagttcttattttctgtgcctatcaattataggttttttgt--tggttaagttaaatttatttctattttatttttgctgacttgactcttttattttgtttcggtgtttgttt---agCCAGTGGGAAAGCAGCAGAATTTGGTGCCCTAAAAGATGGCTATATGTTTGAGTGTACAACGGGTCTCTCAAGGAT
| || || | | | ||| || || | || | ||| | ||| || || | | | ||| ||| | || | | ||| ||| | |||||||||||| ||||||||| ||||||||||||||||||||||| | || || || || ||||
----------------------------------------------acaccatttcaggctatactgttatgtttgaatttgtctaattattgcattagttctgttacttcaatatgaatatattgctgtggcttgtattttacagCTACTGGGAAAGCAGCCGAATTTGGTCAACTAAAAGATGGCTATATGTTTGACACGTCTACTGGCCTGTCGCGGAT
upper sequence: GLYMA02G12480.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv17s0000g08490.t01 (Vitis vinifera), 3'ss of exon 6
----gtaggtgtttgttctcgacctcattttaagttcttattttctgtgcctatcaattataggtt--ttttgttggttaagttaaatttatttctattttatttttgctgacttgactcttttattttgtttcggtgtttgtttagCCAGTGGGAAAGCAGCAGAATTTGGTGCCCTAAAAGATGGCTATATGTTTGAGTGTACAACGGGTCTCTCAAGGAT
|| | | || | | ||||| ||| | | | | || | ||| | | ||| |||| | ||| | ||| | | |||| | | | | | || | |||| ||||||||||||||||||||||| ||||| |||| ||||| ||||| |||||||||| |||| || || ||| | ||
gttagtttatttggatttctggcttcattataaatacctcacacttatggtt-tcatctttgagttactttttcctactttgtttagactatgaggagagggtatttggcctaataatttctaaaacttcatatcttgttc--ttagCCAGTGGGAAAGCAGCAGAGTTTGGCCCCCTTAAAGACGGCTACATGTTTGAGTCATCAACAGGCCTATCACGAATMapped 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|214004495|gb|DB985079.1|DB985079EST: GAATGAATCCAGAGTTGGCATGTACTGATG CCAGTGGGAAAGCAGCAGAATTTGGTGCCCTAAAAGATGGCTATATGTTTG
genomic: GAATGAATCCAGAGTTGGCATGTACTGATGgtaggtgttt ... gtttgtttagCCAGTGGGAAAGCAGCAGAATTTGGTGCCCTAAAAGATGGCTATATGTTTG
EST:
gi|213588337|gb|DB967823.1|DB967823EST: GGTCGTAAAAGCAAACCCTGGAATGAATCCAGAGTTGGCATGTACTGATG CCAGTGGGAAA
genomic: GGTCGTAAAAGCAAACCCTGGAATGAATCCAGAGTTGGCATGTACTGATGgtaggtgttt ... gtttgtttagCCAGTGGGAAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttctattttatttttgctgacttgactcttttattttgtttcggtgtttgtttagCCAGTGGGAAAGCAGCAGAATTTGGTGCCCTAAAAGATGGCTATATGTTTGAGTGTACAACGGGTCTCTCAAGGAT
tttgttt CT-rich tract
tcttttattttgttt TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaggtgtttgttctcgacctcattttaagttcttattttctgtgcctatcaattataggttttttgttggttaagttaaatttatttctattttatttttgctgacttgactcttttattttgtttcggtgtttgtttagCCAGTGGGAAAGCAGCAGAATTTGGTGCCCTAAAAGATGGCTATATGTTTGAGTGTACAACGGGTCTCTCAAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG