Sequence
atgc intronic sequence ATGC exonic sequence...ccactaaaagaaatgttatctattttcatattgtagcttgcataaataaattgttatctctattacataatttttaaattttccttcccctgcatttcagTGCCTTTCATTTAAGCTACAACATGATTTTGAACCAAATGCGGTGTGAAGATGGTGATCCTGAAAATTTGCTACGTAATTCCTTTTTTCAGTTCCAAGCA
Basic information
species | Glycine max |
transcript | GLYMA08G47700.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G47700.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os12g18140.1 (Oryza sativa), 3'ss of exon 7
ccactaaaagaaatgttatctattttcatattgtagcttgcataaataaattgttatctctattacataatttttaaattttcct--------tcccctgcatttcagTGCCTTTCATTTAAGCTACAACATGATTTTGAACCAAATGCGGTGTGAAGATGGTGATCCTGAAAATTTGCTACGTAATTCCTTTTTTCAGTTCCAAGCA
| ||| |||||| | || | ||| | | | | || | || || || | || ||| || | || || || | | ||| |||||||||||||||| |||||||| ||| | || || ||||| || ||||||||||||||||||||||| | || || | || |||| || || |||||
----ttgttgaactgttatgt-ttcttatagttttgagcgttcaatt---ttttttcctgttttgcatggttctcaacttctcatgtgattatcctcctcttgatcagTGCCTTTCATTTGAGCTACAATATGTTGTTAAATCAAATACGCTGTGAAGATGGTGATCCTGAAAAGCTTCTTCGGCACTCATTTTACCAATTTCAAGCT
upper sequence: GLYMA08G47700.1 (Glycine max), 3'ss of exon 7
lower sequence: AT1G59760.1 (Arabidopsis thaliana), 3'ss of exon 7
---------------ccactaaaagaaatgttatctattttcatattg-tagcttgcataaataaa-ttgttatctctattacat--aatttttaaa----ttttccttcccctgcatttcagTGCCTTTCATTTAAGCTACAACATGATTTTGAACCAAATGCGGTGTGAAGATGGTGATCCTGAAAATTTGCTACGTAATTCCTTTTTTCAGTTCCAAGCA
|| | | || |||| | |||| ||| ||| | || | || | | | || | | || |||| |||| | ||||||||| ||||| ||||| |||||| || | || ||| ||||||||||||| ||||||||||| ||| | || || ||||| || |||||||| |||||
gtacattgttaagtatttctgatatttattttattatcaacctgattgatagtctgctttaagagggttagagttcttgacatattcactcaccaagactgttttgtttcctttattcaccagTGCCTTCCATTTGAGCTATAACATGCTTCTAAATCAATTGCGGTGTGAAGAAGGTGATCCTGAGAATCTTCTGCGAAATTCGTTCTTTCAGTTTCAAGCT
upper sequence: GLYMA08G47700.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv06s0009g01750.t01 (Vitis vinifera), 3'ss of exon 7
ccactaaaagaa--atgttatctattttcatattgtagcttgcataaataaattgtta-tctctattacataatttttaaattttccttcccctgcatttcagTGCCTTTCATTTAAGCTACAACATGATTTTGAACCAAATGCGGTGTGAAGATGGTGATCCTGAAAATTTGCTACGTAATTCCTTTTTTCAGTTCCAAGCA
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---acaaaagaactatacaatttgatccctcgatcagccaagaattgctattgttttgctttctgtggtgttttgtggtgacactttttcccttttgttccagTGCCTTCCATTTAAGTTACAACATGCTTCTGAATCAAATGCGATCTGAGGATGGTGATCCTGAAAAGTTGCTTCGCAATTCATTCTATCAATTTCAAGCAMapped 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|192323649|gb|FK015955.1|FK015955EST: TCTTCTACTGCTAAAAATATGGTTAAAGGGGCAGCTGATAGTCTAAACAG TGCCTTTCATTTAAGCTACAACATGATTTTGAACCAAATGCGGTGTGAAGA
genomic: CCTTCTACTGCTAAAAATATGGTTAAAGGGGCAGCTGATAGTCTAAACAGgtaaattgtt ... tgcatttcagTGCCTTTCATTTAAGCTACAACATGATTTTGAACCAAATGCGGTGTGAAGA
EST:
gi|26048066|gb|CA784665.1|CA784665EST: CCTTCTACTGCTAAAAATATGGTTAAAGGGGCAGCTGATAGTCTAAACAG TGCCTTTCATTTAAGCTACAACATGATTTTGAACCAAATGCGGTGTGAAGA
genomic: CCTTCTACTGCTAAAAATATGGTTAAAGGGGCAGCTGATAGTCTAAACAGgtaaattgtt ... tgcatttcagTGCCTTTCATTTAAGCTACAACATGATTTTGAACCAAATGCGGTGTGAAGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ataaattgttatctctattacataatttttaaattttccttcccctgcatttcagTGCCTTTCATTTAAGCTACAACATGATTTTGAACCAAATGCGGTGTGAAGATGGTGATCCTGAAAATTTGCTACGTAATTCCTTTTTTCAGTTCCAAGCA
ttttccttcccctgca CT-rich tract
ttgttatctctattac 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ccactaaaagaaatgttatctattttcatattgtagcttgcataaataaattgttatctctattacataatttttaaattttccttcccctgcatttcagTGCCTTTCATTTAAGCTACAACATGATTTTGAACCAAATGCGGTGTGAAGATGGTGATCCTGAAAATTTGCTACGTAATTCCTTTTTTCAGTTCCAAGCA
ccactaa
- - - - - - - - - - - - - - - - - -gcttgca
- - - - - - - - - - - - - - - - - - - - - -aaataaa