Sequence
atgc intronic sequence ATGC exonic sequencegtattttatttatttattcatttgtagtgcatgttttgaagtcagtctttcaaaggaaaatttatgaatgtgaagagtgattgatgatttttggcgtgttttttgaatgttgcagTCATTGATGATTGCTGCGATCCCCAATATAATAGGGTGGCTTGCTATTTCTTTTGCCAAA
Basic information
species | Glycine max |
transcript | GLYMA16G25310.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G25310.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G160504_T02 (Zea mays), 3'ss of exon 2
gtattttatttatttattcatttgtagtgcatgttttgaagtcagtctttcaaaggaaaatttatgaatgtgaagagtgattgatgatttttggcgtgttttttgaatg-ttgcagTCATTGATGATTGCTGCGATCCCCAATATAATAGGGTGGCTTGCTATTTCTTTTGCCAAA-----------
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---------aagttcagtc--tggtgatcagtgtat-gacatca---tttcagtcgtagttaattgcattagagctgt-actattctagtctaacgattttgctaaatggttgcagTCGTTGATGATTGCTGCAATCCCAAATATCATCGGTTGGCTTGCGATCTCCTTTGCAAAAGTATTCAACAA
upper sequence: GLYMA16G25310.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G160504_T01 (Zea mays), 3'ss of exon 2
gtattttatttatttattcatttgtagtgcatgttttgaagtcagtctttcaaaggaaaatttatgaatgtgaagagtgattgatgatttttggcgtgttttttgaatg-ttgcagTCATTGATGATTGCTGCGATCCCCAATATAATAGGGTGGCTTGCTATTTCTTTTGCCAAA
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---------aagttcagtc--tggtgatcagtgtat-gacatca---tttcagtcgtagttaattgcattagagctgt-actattctagtctaacgattttgctaaatggttgcagTCGTTGATGATTGCTGCAATCCCAAATATCATCGGTTGGCTTGCGATCTCCTTTGCAAAA
upper sequence: GLYMA16G25310.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv04s0023g01860.t01 (Vitis vinifera), 3'ss of exon 3
gtattttatttatttattcatttgtagtgcatgttttgaagtcagtctttcaaaggaaaatttatgaatgtgaagagtgattgatgatttttggcgtgttttttgaatgttgcagTCATTGATGATTGCTGCGATCCCCAATATAATAGGGTGGCTTGCTATTTCTTTTGCCAAA
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---------gtgctttagtattgtgattgcgcatttgcatttgcattttctgattgcaggtgc-----cataaaaatgaatttctgaatgttggttctttctgttgac-ttgcagTCACTAATGATTGCTTCGATTCCTAATATAATAGGATGGCTTGCAATATCATTTGCCCAAMapped 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|213614733|gb|DB973076.1|DB973076EST: TGGGAGCTATAGCTAGTGGTCAGATAGCTGAATACATCGGGCGCAAAGGG TCATTGATGATTGCTGCGATCCCCAATATAATAGGGTGGCTTGCTATTTCT
genomic: TGGGAGCTATAGCTAGTGGTCAGATAGCTGAATACATCGGGCGCAAAGGGgtattttatt ... aatgttgcagTCATTGATGATTGCTGCGATCCCCAATATAATAGGGTGGCTTGCTATTTCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttatgaatgtgaagagtgattgatgatttttggcgtgttttttgaatgttgcagTCATTGATGATTGCTGCGATCCCCAATATAATAGGGTGGCTTGCTATTTCTTTTGCCAAA
gattgat putative branch site (score: 4)
ttttttgaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattttatttatttattcatttgtagtgcatgttttgaagtcagtctttcaaaggaaaatttatgaatgtgaagagtgattgatgatttttggcgtgttttttgaatgttgcagTCATTGATGATTGCTGCGATCCCCAATATAATAGGGTGGCTTGCTATTTCTTTTGCCAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC