Sequence
atgc intronic sequence ATGC exonic sequencegtaaatatcaatatgttctgcttctcatgtgtggctggttattaattactatcaatttgcttagagatttcatgaaaacaatttgtataattattttgttaaaatgtttcctagAGGAGGGCTAAATTTCGAAGAGCAGAAGACAATCAAAAGTGTGCATTTGACTTATTGGCCACCGTAGCTGGTAAACTATTGCAAGAGAGAGAGAATCCAA
Basic information
species | Glycine max |
transcript | GLYMA11G14760.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G14760.4 (Glycine max), 3'ss of exon 1
lower sequence: AT3G46590.1 (Arabidopsis thaliana), 3'ss of exon 2
gtaaatatcaatatgttctgcttctcatgtgtggctggttattaattactatcaatttgcttagagatttcatgaaaacaatttgtataattattttgttaaaatgtttcctagAGGAGGGCTAAATTTCGAAGAGCAGAAGACAATCAAAAGTGTGCATTTGACTTATTGGCCACCGTAGCTGGTAAACTATTGCAAGAGAGAGAGAATCCAA
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gtaaatgaccctttgctata-ttctc-tgtttagctgttaaagaatt--tatcagttacatgaatgatcactcgcat---gtttgttcacatttttgctagaagAAGCGCATTTACGAAAAGAAGAT-------ACCAGGAGATGATAAGATGTGCGCGATTGACTTATTGGCCACCGTAGCTGGAAGCTTGCTTCTCGAGAGCAAAAGTC---
upper sequence: GLYMA11G14760.4 (Glycine max), 3'ss of exon 1
lower sequence: AT3G46590.2 (Arabidopsis thaliana), 3'ss of exon 2
gtaaatatcaatatgttctgcttctcatgtgtggctggttattaattactatcaatttgcttagagatttcatgaaaacaatttgtataattattttgttaaaatgtttcctagAGGAGGGCTAAATTTCGAAGAGCAGAAGACAATCAAAAGTGTGCATTTGACTTATTGGCCACCGTAGCTGGTAAACTATTGCAAGAGAGAGAGAATCCAA
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gtaaatgaccctttgctata-ttctc-tgtttagctgttaaagaatt--tatcagttacatgaatgatcactcgcat---gtttgttcacatttttgctagAAGAAGCGCATTTACGAAAAGAAGAT-------ACCAGGAGATGATAAGATGTGCGCGATTGACTTATTGGCCACCGTAGCTGGAAGCTTGCTTCTCGAGAGCAAAA------
upper sequence: GLYMA11G14760.4 (Glycine max), 3'ss of exon 1
lower sequence: Vv06s0004g04940.t01 (Vitis vinifera), 3'ss of exon 2
gtaaatatcaatatgttctgcttctcatgtgtggctggttattaattactatcaatttgcttagagatttcatgaaaacaatttgtataattattttgttaaaatgtttcctagAGGAGGGCTAAATTTCG---AAGAGCAGAAGACAATCAAAAGTGTGCATTTGACTTATTGGCCACCGTAGCTGGTAAACTATTGCAAGAGAGAGAGAATCCAA
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------gtatatagattctaccattcgtagttagc--gttgtt--tcttttttatttctatctgaaa---cactgacatg---tgtttaattatattttt---acttgttttagAGGAGGGGTTTATTTAGGAAAAAAGTTGAAGACAATCAAATGTTCGCATTTGATTTATTGGCTACAGTAGCTGGCAAATTATTGCTGGAGGGAGAAAAAT---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|207767391|gb|GD740139.1|GD740139EST: TTAATGGCTATCAGGCTCCGGCCATGCCGCGAGCTTCCCGATCAACTAGG AGGAGGGCTAAATTTCGAAGAGCAGAAGACAATCAAAAGTGTGCATTTGAC
genomic: TTAATGGCTATCAGGCTCCGGCCATGCCGCGAGCTTCCCGATCAACTAGGgtaaatatca ... tgtttcctagAGGAGGGCTAAATTTCGAAGAGCAGAAGACAATCAAAAGTGTGCATTTGAC
EST:
gi|193336342|gb|FK297682.1|FK297682EST: TTAATGGCTATCAGGCTCCGGCCATGCCGCGAGCTTCCCGATCAACTAGG AGGAGGGCTAAATTTCGAAGA
genomic: TTAATGGCTATCAGGCTCCGGCCATGCCGCGAGCTTCCCGATCAACTAGGgtaaatatca ... tgtttcctagAGGAGGGCTAAATTTCGAAGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttagagatttcatgaaaacaatttgtataattattttgttaaaatgtttcctagAGGAGGGCTAAATTTCGAAGAGCAGAAGACAATCAAAAGTGTGCATTTGACTTATTGGCCACCGTAGCTGGTAAACTATTGCAAGAGAGAGAGAATCCAA
tgtttcct CT-rich tract
atttcatgaaaacaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaatatcaatatgttctgcttctcatgtgtggctggttattaattactatcaatttgcttagagatttcatgaaaacaatttgtataattattttgttaaaatgtttcctagAGGAGGGCTAAATTTCGAAGAGCAGAAGACAATCAAAAGTGTGCATTTGACTTATTGGCCACCGTAGCTGGTAAACTATTGCAAGAGAGAGAGAATCCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA