Sequence
atgc intronic sequence ATGC exonic sequenceGTAAATTCAAGCCTGTGATCAAGAAGGCAATGGTGGAACTTGAAGgtaaacatatatattcatgaaaacttcattgatttgggctcaataatccactaacgctactgtgtcactcagaaaaatgaaatgaaagggagggtaaaat...
Basic information
species | Glycine max |
transcript | GLYMA15G11890.1 |
intron # | 14 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G11890.1 (Glycine max), 5'ss of exon 14
lower sequence: LOC_Os06g13810.1 (Oryza sativa), 5'ss of exon 14
GTAAATTCAAGCCTGTGATCAAGAAGGCAATGGTGGAACTTGAAGgt---aaacatatatattcatgaaaacttcattgatttgggct-caataatccactaacgctactgtgtcactcagaaaaatgaaatgaaagggagggtaaaat
| || | |||||| |||||||||||||| |||||||||||||| ||| || || | |||| | || | || || | | || | | | ||| | | | | | ||
GAAAGTACAAGCCAGTGATCAAGAAGGCTATGGTGGAACTTGACGgtacgaagcacttctattatcaacgctaacagtaatgtgatttatggacctttacccaaaatctcatttcatctatca---tccattttcag------------
upper sequence: GLYMA15G11890.1 (Glycine max), 5'ss of exon 14
lower sequence: GRMZM2G143862_T01 (Zea mays), 5'ss of exon 7
GTAAATTCAAGCCTGTGATCAAGAAGGCAATGGTGGAACTTGAAGgtaaacatatatattcatgaaaacttcattgatttgggctcaataatccactaacgctactgtgtcactcagaaaa-atgaaatgaaagggagggtaaaat----
| || |||||||| |||||||||||||| ||||||||||| || |||| || | | ||| || ||| | | | | | | || | | ||| || |||| ||| || | | | | |
GCAAGTTCAAGCCAGTGATCAAGAAGGCTATGGTGGAACTCGATGgtacg---atgaactttggaatgtttgatttactgctgattatgatgtttttatggtttatgtccttttcccaaaatgtgatattatgtgctgcccgatttccag
upper sequence: GLYMA15G11890.1 (Glycine max), 5'ss of exon 14
lower sequence: GRMZM2G059151_T01 (Zea mays), 5'ss of exon 14
GTAAATTCAAGCCTGTGATCAAGAAGGCAATGGTGGAACTTGAAGgta-aacatatatattcatgaaaacttcattgatttgggctcaata-atccactaacgctactgtgtcactcagaaaaatgaaatgaaagggagggtaaaat-----
| || |||||||| |||||||||||||| ||||| |||||||| |||| | | ||| ||| ||| | | | ||| | | ||| | | | |||| | | | || | | || |
GCAAGTTCAAGCCAGTGATCAAGAAGGCTATGGTCGAACTTGATGgtatgatgaactctggaatgttcgcttgatttactgatgatcatgacgtttcttaatggttc-atgtcctttttccatgtctgatatcctgtgacgccaatttccag
upper sequence: GLYMA15G11890.1 (Glycine max), 5'ss of exon 14
lower sequence: AT4G04040.1 (Arabidopsis thaliana), 5'ss of exon 14
GTAAATTCAAGCCTGTGATCAAGAAGGCAATGGTGGAACTTGAAGgtaaacatatatattcatgaaaacttcattgat-ttgggctcaataatccactaacgctactgtgtcactcagaaaaatgaaatgaaagggagggtaaaat
|||||||||||||||| |||||||| || ||||| |||||||||||||| | | | ||| | ||| | || || | | ||||| ||| | ||||
GTAAATTCAAGCCTGTTATCAAGAAAGCTATGGTTGAACTTGAAGgtaattagtctttagctcaaaacatatattattcttcggtttcttttcttgctaac---actataaatttcag----------------------------
upper sequence: GLYMA15G11890.1 (Glycine max), 5'ss of exon 14
lower sequence: AT1G12000.1 (Arabidopsis thaliana), 5'ss of exon 14
GTAAATTCAAGCCTGTGATCAAGAAGGCAATGGTGGAACTTGAAGgtaaacatatatattcatgaaaacttcattgatttgggctcaataatccactaacgctactg--tgtcactcagaaaaatgaaatgaaagggagggtaaaat
|||| |||||||||||||||||||| ||||||||||||||||||||| | | | | | | | ||||| | ||| | | | | | ||| |||| | || || |
GTAAGTTCAAGCCTGTGATCAAGAAAGCAATGGTGGAACTTGAAGgtgaccctttgattcccttcccttttcatagttttcgatt-ggcggttagattgtcttgctgactgtctttttgagctctgcag------------------
upper sequence: GLYMA15G11890.1 (Glycine max), 5'ss of exon 14
lower sequence: Vv10s0116g00360.t01 (Vitis vinifera), 5'ss of exon 14
GTAAATTCAAGCCTGTGATCAAGAAGGCAATGGTGGAACTTGAAGgtaaa---catatatattcatgaaaacttcattgatttgggctcaataatccactaacgctactgtgtcactcagaaaaatgaaatgaaagggagggtaaaat--------------------------------------------------------------------------------
|||| ||||||||||||||||||||||||||||| |||||||| ||||| || | ||| |||| ||| | | || | | || | || | ||||| ||| | || | | ||
GTAAGTTCAAGCCTGTGATCAAGAAGGCAATGGTTGAACTTGATGgtaagaagtatttctatgcatgcttgtcattttgtctccatttgtattaactcgtagaattgcttctagtcctagaaacatgcagcaaatagtcatttgctattaccccatattcatttgtttcacttgtgaatggttgtcgccccaaccaaatatgactaagcatacattttgaaatttcagMapped 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|21602004|gb|BQ612335.1|BQ612335EST: GTAAATTCAAGCCTGTGATCAAGAAGGCAATGGTGGAACTTGAAG GGGCACCCTTCAAAAAGTTTGCCTCCTTGCGGGATGAATGGGCCCTGAAGA
genomic: GTAAATTCAAGCCTGTGATCAAGAAGGCAATGGTGGAACTTGAAGgtaaacatat ... gatcattcagGGGCACCCTTCAAAAAGTTTGCCTCCTTGCGGGATGAATGGGCCCTGAAGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTAAATTCAAGCCTGTGATCAAGAAGGCAATGGTGGAACTTGAAGgtaaacatatatattcatgaaaacttcattgatttgggctcaataatccactaacgctactgtgtcactcagaaaaatgaaatgaaagggagggtaaaat
- - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaatgaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gggaggg