Sequence
atgc intronic sequence ATGC exonic sequenceTGAACTGTTTGCCCAAACAAAATATAAGGAAGCTGCAGAACTTGCAGCTGAATCTCCACAAGGAATCCTTCGAACTCCTGACACAGTTGCCAAATTTCAGgtttcttgataagatgttgctatctgagaattgtctcttgcttttttagccactttattcacagagattcattttctggttgtttactgtttgcctttaggtggtgtccttttgtttggtcaattagttataatgtttaaaatgccattatctgctttacgtggcag
Basic information
species | Glycine max |
transcript | GLYMA14G06340.2 |
intron # | 11 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G06340.2 (Glycine max), 5'ss of exon 11
lower sequence: LOC_Os11g01380.1 (Oryza sativa), 5'ss of exon 11
TGAACTGTTTGCCCAAACAAAATATAAGGAAGCTGCAGAACTTGCAGCTGAATCTCCACAAGGAATCCTTCGAACTCCTGACACAGTTGCCAAATTTCAGgtttcttgataagatgttgctatctgagaattgtctcttgcttttttagccactttattca-cagagattcattttctg-gttgtttactgtttgcctttaggtggtgtccttttgtttggtcaattagttataatgtttaaaatgccattatctgctttacgtggcag
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AGAATTGTTTGCACAAACAAAATACAAGGAAGCAGCTGAGTTGGCTGCAGAATCTCCTCAAGGTCTTCTCCGAACTCCTGAGACTGTTGCAAAATTTCAGgtgcatttct--gctcttg--attacagagctat-taacacttctttacctccattttacagctatttttcacattctgtactgttaaaagcttaaaattatgtg----------------------------------------------------------------
upper sequence: GLYMA14G06340.2 (Glycine max), 5'ss of exon 11
lower sequence: LOC_Os12g01390.1 (Oryza sativa), 5'ss of exon 11
TGAACTGTTTGCCCAAACAAAATATAAGGAAGCTGCAGAACTTGCAGCTGAATCTCCACAAGGAATCCTTCGAACTCCTGACACAGTTGCCAAATTTCAGgtttcttgataagatgttgctatctgagaattgtctcttgcttttttagccactttattca-cagagattcattttctg-gttgtttactgtttgcctttaggtggtgtccttttgtttggtcaattagttataatgtttaaaatgccattatctgctttacgtggcag
||| ||||||| ||||||||||| |||||||| || || | || || |||||||| ||||| | || ||||||||||| || ||||| ||||||||||| || | | | ||| || ||| | | | ||| || | | | || | || | |||| ||||| |||| | | || ||| |||
AGAATTGTTTGCACAAACAAAATACAAGGAAGCAGCTGAGTTGGCTGCAGAATCTCCTCAAGGTCTTCTCCGAACTCCTGATACTGTTGCAAAATTTCAGgtgcatttct--gctcttg--attacagagctat-taacacttcttcacctccattttacagctatttttcacattctgtactgttaaaagcttaaaattatgtg----------------------------------------------------------------
upper sequence: GLYMA14G06340.2 (Glycine max), 5'ss of exon 11
lower sequence: AT3G08530.1 (Arabidopsis thaliana), 5'ss of exon 11
TGAACTGTTTGCCCAAACAAAATATAAGGAAGCTGCAGAACTTGCAGCTGAATCTCCACAAGGAATCCTTCGAACTCCTGACACAGTTGCCAAATTTCAGgtttcttgataagatgttgctatctgagaattgtctcttgcttttttagccactttattcacagagattcattttctggttgtttactgtttgcctttaggtggtgtccttttgtttggtcaattagttataatgtttaaaatgccattatctgctttacgtggcag
|| |||| || |||||||| || ||||| ||||| || ||||| ||||||||||| |||||||| || | || ||||| ||||| |||||||| ||||| ||| | | || | || | | | | ||| | | | || | | | ||||| | | || | |||||
GGAGTTGTTCGCTCAAACAAAGTACAAGGAGGCTGCTGAGCTTGCTGCTGAATCTCCTCAAGGAATTCTAAGGACACCTGATACAGTGGCCAAATTCCAGgtgtctatttcatatccaagcaactatgtgtaaacatgtttatttatgatgaaat-gttggta-acaccaatttttcaactctataat-tttgcag-----------------------------------------------------------------------
upper sequence: GLYMA14G06340.2 (Glycine max), 5'ss of exon 11
lower sequence: Vv13s0067g01290.t01 (Vitis vinifera), 5'ss of exon 11
TGAACTGTTTGCCCAAACAAAATATAAGGAAGCTGCAGAACTTGCAGCTGAATCTCCACAAGGAATCCTTCGAACTCCTGACACAGTTGCCAAATTTCAGgtttcttgataagatgttgctatctgagaattgtctcttgctttttta-gccactttattcacagagattcattttctggttgtttactgtttgcctttaggtggtgtccttttgtttggtcaattagttataatgtttaaaatgccattatctgctttacgtggcag
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AGAATTGTTTGCTCAGACAAAGTATAAGGAGGCTGCTGAGCTTGCTGCTGAATCTCCACAAGGAATTCTCCGTACACCGGACACAGTTGCCAAATTTCAGgtgtct--attttgt-taactatttcacatgttccccacagtgcttaatgttattctgttgattg--atttctttgcaactggactcctgtaaggaaggatggga---------------------------------------------------------------
upper sequence: GLYMA14G06340.2 (Glycine max), 5'ss of exon 11
lower sequence: PP1S452_30V6.1 (Physcomitrella patens), 5'ss of exon 12
TGAACTGTTTGCCCAAACAAAATATAAGGAAGCTGCAGAACTTGCAGCTGAATCTCCACAAGGAATCCTTCGAACTCCTGACACAGTTGCCAAATTTCAGgtttcttgataagatgt--tgctatctgagaattgtctc-------ttgctt--ttttagccactttattcacagagattcattttctggttgt-ttactgtttgcctttaggtggtgtccttttgtttggtcaattag-ttataatgtttaaaatgcca--ttatctgctttacgtggcag--------------------
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------------TCAAATGAAATACAAGGAAGCAGCTGACCTTGCAGCTGAATCACCAAAAGGAATACTTCGAACTCCAGATACGGTGGCCAAATTTCAGGCAAGTCACCCAgtcgtacttttgcccaaattttgtttcataaaagttgcttactttaatttgtgtctttcttcctagttcactagcttatagaatctttagtctcttttttttgaagtccctgtctgtaacacatcagactagcttgtttttgtttctgacttaactcatggaattaacatgttttactctactattacagMapped 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|20815168|gb|BQ299646.1|BQ299646EST: AATCTCCACAAGGAATCCTTCGAACTCCTGACACAGTTGCCAAATTTCAG AGTGTTCCTGTGCAAGCTGGGCAAACTCCTCCTCTGTTGCAGTATTTTGGA
genomic: AATCTCCACAAGGAATCCTTCGAACTCCTGACACAGTTGCCAAATTTCAGgtttcttgat ... tacgtggcagAGTGTTCCTGTGCAAGCTGGGCAAACTCCTCCTCTGTTGCAGTATTTTGGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGAACTGTTTGCCCAAACAAAATATAAGGAAGCTGCAGAACTTGCAGCTGAATCTCCACAAGGAATCCTTCGAACTCCTGACACAGTTGCCAAATTTCAGgtttcttgataagatgttgctatctgagaattgtctcttgcttttttagccactttattcacagagattcattttctggttgtttactgtttgcctttaggtggtgtccttttgtttggtcaattagttataatgtttaaaatgccattatctgctttacgtggcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA