Sequence
atgc intronic sequence ATGC exonic sequenceACGACCTCAAGGGGGACAAGATATTCTGTCTCTGATGGGTCAGATGATGAAGCCCAGGAAAACAGAAATCACTGACAAGTTGAGGCAAGAGATTAACAAGgtattttaataacttttgatacaagtttgtagtttcttatttatgggaaaaattaagggtcgaaaagtgagcttttgtcttagcaatttgttcaattgct...
Basic information
species | Glycine max |
transcript | GLYMA08G21830.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G21830.1 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os07g08170.1 (Oryza sativa), 5'ss of exon 6
ACGACCTCAAGGGGGACAAGATATTCTGTCTCTGATGGGTCAGATGATGAAGCCCAGGAAAACAGAAATCACTGACAAGTTGAGGCAAGAGATTAACAAGgtattttaataacttttgatacaagtttgtagtttct----------tatttatgggaaaaat-taagggtcgaaaagtgagcttttgtcttagcaatttgttcaattgct
| ||| ||||| || ||||||||| |||| || ||||| |||||||||||||| ||||||| ||||||||||| ||| | | ||||| || || |||||||| ||| | || || || | || | | | | ||| || | ||| | | | ||| |||| | | | | | |
TCAACCACAAGGAGGCCAAGATATTTTGTCCCTTATGGGACAGATGATGAAGCCACGGAAAACTGAAATCACTGAGAAGCTACGACAAGAAATCAATAAGgtattcaaatttcccatgtagcagcactgctgcttttaaaagtggaccacatttaataaacatgtcaggattggcatatgatctttaacatctatactgtatgttgctag-
upper sequence: GLYMA08G21830.1 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G032267_T02 (Zea mays), 5'ss of exon 6
ACGACCTCAAGGGGGACAAGATATTCTGTCTCTGATGGGTCAGATGATGAAGCCCAGGAAAACAGAAATCACTGACAAGTTGAGGCAAGAGATTAACAAGgtattttaataacttttgatacaagtttgtagtttcttatttatgggaaaaattaagggtcgaaaagtga-gcttttgtcttagcaatttgttcaattgct-----------
| || ||||| || ||||||||| |||| || ||||| |||||||||||||| |||| || |||||||| || ||| | | ||||| || || ||||| || | |||| | || ||| ||| ||||| || | || || | | | | | | |||| | | || ||||
CCAGCCACAAGGTGGCCAAGATATTTTGTCCCTTATGGGCCAGATGATGAAGCCACGGAAGACTGAAATCACCGAAAAGCTACGCCAAGAAATCAATAAGgttttgattttttttttcagctaacttt----ttttagttttataggcagtatcaaattttatataatcatgtaagaatcttcacctgattttaaattttacatggtgaaag
upper sequence: GLYMA08G21830.1 (Glycine max), 5'ss of exon 6
lower sequence: AT5G22330.1 (Arabidopsis thaliana), 5'ss of exon 6
ACGACCTCAAGGGGGACAAGATATTCTGTCTCTGATGGGTCAGATGATGAAGCCCAGGAAAACAGAAATCACTGACAAGTTGAGGCAAGAGATTAACAAGgtattttaataacttttgatacaagtttgtagtttcttatttatgggaaaaattaagggtcgaaaagtgagcttttgtcttagcaatttgttcaattgct
||||||||||| || || ||||| || ||| ||||||| || |||||||| || |||| || || |||||||| ||| | ||||||| ||||||||||| ||| | |||| | || | ||| ||| || | | | | | | |||| | || | |
TCGACCTCAAGGTGGCCAGGATATACTTTCTTTGATGGGCCAAATGATGAAACCGCGGAAGACTGAGATCACTGATAAGCTTCGGCAAGAAATTAACAAGgtgattt-----tcgctagtacatgggtg-atttttttaagcatcttactttctcttttgcaaggtctaatatttttatatgccattgtag---------
upper sequence: GLYMA08G21830.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv06s0004g02910.t01 (Vitis vinifera), 5'ss of exon 6
ACGACCTCAAGGGGGACAAGATATTCTGTCTCTGATGGGTCAGATGATGAAGCCCAGGAAAACAGAAATCACTGACAAGTTGAGGCAAGAGATTAACAAGgtat---tttaataacttttgatacaagtttgtagtttcttatttatgggaaaaattaagggtcgaaaagtgagcttttgtcttagcaatttgttcaattgct
||| |||||||| ||||||||||| |||| || ||||||||||||||||||||||||||||||||||||||||| ||||| | || || ||||||||||||| ||| | |||| | | || ||| | |||| | || ||| || | | | ||| | |||| |
ACGGCCTCAAGGTGGACAAGATATATTGTCCCTAATGGGTCAGATGATGAAGCCCAGGAAAACAGAAATCACTGATAAGTTACGACAGGAAATTAACAAGgtatcattttctggatgggagatattaacctatattttttcatttcttttgaactctaaa--tctgtagttatacaaacaggttaattggg-gaacaatcttt
upper sequence: GLYMA08G21830.1 (Glycine max), 5'ss of exon 6
lower sequence: EFJ33466 (Selaginella moellendorffii), 5'ss of exon 6
ACGACCTCAAGGGGGACAAGATATTCTGTCTCTGATGGGTCAGATGATGAAGCCCAGGAAAACAGAAATCACTGACAAGTTGAGGCAAGAGATTAACAAGgtattttaataacttttgatacaagtttgtagtttcttatttatgggaaaaattaagggtcgaaaagtgagct-tttgtcttagcaatttgttcaattgct
|| |||||||| |||||||||||||| || ||||||| |||||||||||||| | || || || |||||||| ||| || |||| || || |||||||| | || | || | | ||||| | | | ||| || | ||| | ||||| ||
GCGTCCTCAAGGTGGACAAGATATTCTTTCCATGATGGGACAGATGATGAAGCCGAAAAAGACTGAGATCACTGATAAGCTGCGGCAGGAAATCAACAAGgttagcagccggcgttcgt--cagctctcctgtttcgaggattttctattgtctaaaggattatgtgtggcatgtttgtggcag-----------------
upper sequence: GLYMA08G21830.1 (Glycine max), 5'ss of exon 6
lower sequence: EFJ27201 (Selaginella moellendorffii), 5'ss of exon 6
ACGACCTCAAGGGGGACAAGATATTCTGTCTCTGATGGGTCAGATGATGAAGCCCAGGAAAACAGAAATCACTGACAAGTTGAGGCAAGAGATTAACAAGgtattttaataacttttga---tacaagtttgtagtttcttatttatgggaaaaattaagggtcgaaaagtgagcttttgtcttagcaatttgttcaattgct
|| |||||||| |||||||||||||| || ||||||| |||||||||||||| | || || || |||||||| || | ||||||| || |||||||| | | | | |||| | || | || | | |||| | || | | ||||| ||
GCGTCCTCAAGGTGGACAAGATATTCTTTCCATGATGGGACAGATGATGAAGCCGAAAAAGACTGAGATCACTGATAAACTACGGCAAGAAATCAACAAGgttagccggtgttcgtcagctctcctgttttgaggattttctattgtctagaggattatgtgtggga-------tctttgtggcag-----------------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|151406331|gb|EV276146.1|EV276146EST: AGCCCAGGAAAACAGAAATCACTGACAAGTTGAGGCAAGAGATTAACAAG GTTGTTAACCGATATATTGATGAAGGTGTAGCAGAGCTTGTTCCTGGAGTT
genomic: AGCCCAGGAAAACAGAAATCACTGACAAGTTGAGGCAAGAGATTAACAAGgtattttaat ... ttggtggcagGTTGTTAACCGATATATTGATGAAGGTGTAGCAGAGCTTGTTCCTGGAGTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ACGACCTCAAGGGGGACAAGATATTCTGTCTCTGATGGGTCAGATGATGAAGCCCAGGAAAACAGAAATCACTGACAAGTTGAGGCAAGAGATTAACAAGgtattttaataacttttgatacaagtttgtagtttcttatttatgggaaaaattaagggtcgaaaagtgagcttttgtcttagcaatttgttcaattgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggaaaaat