Sequence
atgc intronic sequence ATGC exonic sequencegtaagatgatgtattttaccttttttttttttggggggggggggggggggggtctatgcattattaatgtgtctaatgctttaaagtttctgtttctgttcaatttgattagGTGGGAAAAGTATGATGCTAAAGGCTGGACTGAGAAAGGGGCACATAAGTACGGTAGACTGAATGAACAATCATGGTGGGAAAAGTGGGGAGAGCATTAT
Basic information
species | Glycine max |
transcript | GLYMA06G02120.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G02120.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os03g04100.1 (Oryza sativa), 3'ss of exon 6
gtaagatgatgtattttaccttttttttttttggggggggggggggggggggtctatgcattattaatgtgtctaatgctttaaagtttctgtttctgttcaatttgattagGTGGGAAAAGTATGATGCTAAAGGCTGGACTGAGAAAGGGGCACATAAGTACGGTAGACTGAATGAACAATCATGGTGGGAAAAGTGGGGAGAGCATTAT
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--------gtgagagttatctcaggctttcgtttaggtttggttgcaattgttctgcaaaatatt--tgcttgaactgttgaagtgttcatgtttctttcc--------tagGTGGGAGAAATATGATGCCAAAGGCTGGACAGAAAAAGGTGCTCATAAGTACGGAAGATTAAATGAACAATCCTGGTGGGAGAGGTGGGGTGAACATTAT
upper sequence: GLYMA06G02120.1 (Glycine max), 3'ss of exon 6
lower sequence: AT1G42430.2 (Arabidopsis thaliana), 3'ss of exon 6
gtaagatgatgt--attttaccttttttttttttggggggggggggggggggggtctatgcattattaatgtgtctaatgctttaaagtttctgtttctgttcaatttga-ttagGTGGGAAAAGTATGATGCTAAAGGCTGGACTGAGAAAGGGGCACATAAGTACGGTAGACTGAATGAACAATCATGGTGGGAAAAGTGGGGAGAGCATTAT
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gtaggtcaataacaacaccagttgctaatattaccctgcagtgtttgcttttgtttgatgtaaaggagaagcttattcttctactggactaaaactatcattcactgaaaatcagGTGGGAGAAGTACGATGCTAAAGGGTGGACAGAGAAAGGAGCACATAAGTATGGTAGACTTAATGAGCAGTCATGGTGGGAGAAGTGGGGGGAGCATTAT
upper sequence: GLYMA06G02120.1 (Glycine max), 3'ss of exon 6
lower sequence: EFJ21173 (Selaginella moellendorffii), 3'ss of exon 5
gtaagatgatgtattttaccttttttttttttggggggggggggggggggggtctatgcattattaatgtgtctaatgctttaaagtttctgtttctgttcaattt--gattagGTGGGAAAAGTATGATGCTAAAGGCTGGACTGAGAAAGGGGCACATAAGTACGGTAGACTGAATGAACAATCATGGTGGGAAAAGTGGGGAGAGCATTAT
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------------------------------------------------------------gtaagaacacgtcgtatgatc-aagcttaatatcacatcttagttttggaccagGTGGGAAAAGTATAATGCCAAGGGCTGGACAGAGAAAGGTGCTCACAAGTATGGAAGGCTCAATGAGCAGTCCTGGTGGGAGAAGTGGGGCGAGCAATAT
upper sequence: GLYMA06G02120.1 (Glycine max), 3'ss of exon 6
lower sequence: EFJ19379 (Selaginella moellendorffii), 3'ss of exon 3
------------------------------------------------------------------gtaagatgatg-tattttaccttttttttttttggggggggggggggggggggtctatgcattattaa---tgtgtctaatgctttaaagtttctgtttctgttcaattt--gattagGTGGGAAAAGTATGATGCTAAAGGCTGGACTGAGAAAGGGGCACATAAGTACGGTAGACTGAATGAACAATCATGGTGGGAAAAGTGGGGAGAGCATTAT
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gtgaggagatattaagactgttgaaatccattttatgtgttttcttgcgcagtaacctggctcgaatcgaaaggacggcacagaaacaagcgaagcaagggaatggggaggccggatggtacgagaaatggtaagaacacgtcgtatgatc-aagcttaatatcacatcgtagttttggaccagGTGGGAAAAGTATAATGCCAAGGGCTGGACAGAGAAAGGTGCTCACAAGTATGGAAGGCTCAATGAGCAGTCCTGGTGGGAGAAGTGGGGCGAACAATATMapped 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|151409651|gb|EV279459.1|EV279459EST: CAAAAACAAGCAAAATCAGGAACTGAAAATGCTGGATGGTATGAAAAATG GTGGGAAAAGTATGATGCTAAAGGCTGGACTGAGAAAGGGGCACATAAGTA
genomic: CAAAAACAAGCAAAATCAGGAACTGAAAATGCTGGATGGTATGAAAAATGgtaagatgat ... atttgattagGTGGGAAAAGTATGATGCTAAAGGCTGGACTGAGAAAGGGGCACATAAGTA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcattattaatgtgtctaatgctttaaagtttctgtttctgttcaatttgattagGTGGGAAAAGTATGATGCTAAAGGCTGGACTGAGAAAGGGGCACATAAGTACGGTAGACTGAATGAACAATCATGGTGGGAAAAGTGGGGAGAGCATTAT
tttaaagttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagatgatgtattttaccttttttttttttggggggggggggggggggggtctatgcattattaatgtgtctaatgctttaaagtttctgtttctgttcaatttgattagGTGGGAAAAGTATGATGCTAAAGGCTGGACTGAGAAAGGGGCACATAAGTACGGTAGACTGAATGAACAATCATGGTGGGAAAAGTGGGGAGAGCATTAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA