Sequence
atgc intronic sequence ATGC exonic sequenceCATTGACTGATTCTTTCGTGTTTCAGGTGGCTTTGAAATTTGAGCACAGGAACAGCAAAGGCTGTAACTATGGCCCTCCTTACGAGTGGCAAGTGTACAAgtaggtgctttgtttatgttgcaagagatatgtgtcgacgattgctttcggttatgcacaagatttgtgtttaagtgaaattgcctgagtttttttatttatttaatgttttgttttgtgaaaag
Basic information
species | Glycine max |
transcript | GLYMA08G47680.3 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G47680.3 (Glycine max), 5'ss of exon 1
lower sequence: Vv06s0004g01090.t01 (Vitis vinifera), 5'ss of exon 3
CATTGACTGATTCTTTCGTGTTTCAGGTGGCTTTGAAATTTGAGCACAGGAACAGCAAAGGCTGTAACTATGGCCCTCCTTACGAGTGGCAAGTGTACAAgtaggtgctttgtttatgtt---gcaagagatatgtgtcgacgattgctttcggttatgcacaagatttgtgtttaagtgaaattgcctgagtttt---ttta-----tttatttaatgttttgttttgtgaaaag--------
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--------------------------GTAGCTTTGAAATTCGAGCACAGAAACAGCAAAGGCTGCAACTATGGCCCTCCATATGAGTGGCAGGTGTACAAgtatgtctgaggtttcttttcaaacaggatatgattatttgcaat--ctttatttctttcaaagaatgagagtctttgtcaaatcacccaaaccctacatttacaatttctatttaaaaatttgttttggttattgttaaacag
upper sequence: GLYMA08G47680.3 (Glycine max), 5'ss of exon 1
lower sequence: EDO97462 (Chlamydomonas reinhardtii), 5'ss of exon 3
CATTGACTGATTCTTTCGTGTTTCAGGTGGCTTTGAAATTTGAGCACAGGAACAGCAAAGGCTGTAACTATGGCCCTCCTTACGAGTGGCAAGTGTACAAgtaggtgctttgtttatgttgcaagagatatgtgtcgacgattgctttcggttatgcacaagatttgtgtttaagtgaaattgcctgagtttttttatttatttaatgttttgttttgtgaaaag
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--------------------------GTGGCTTTAAAATTTGAGCACCGCAGCAGTAAAGGCTGCAACTATGGGCCCCCCTACGAGTGGTCCGTGTACAAgtaggtg------tcaacaagcagccggtttttttcgctgaacggtcgagcgtacgta-gccctttgtgacctcaattacttccttgtgcttgtag-----------------------------
upper sequence: GLYMA08G47680.3 (Glycine max), 5'ss of exon 1
lower sequence: PP1S66_174V6.1 (Physcomitrella patens), 5'ss of exon 3
CATTGACTGATTCTTTCGTGTTTCAGGTGGCTTTGAAATTTGAGCACAGGAACAGCAAAGGCTGTAACTATGGCCCTCCTTACGAGTGGCAAGTGTACAAgtaggtgctttgtttatgttgcaagagatatgtgtcgacg-attgctttcggttatgcacaagatttgtgtttaagtgaaattgcctgagtttttttatttatttaatgttttgttttgtgaaaag-----------------------------------------
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--------------------------GTAGCTTTAAAGTTTGAACATCGGAGCAGCAAGGGTTGCAATTATGGTCCTCCTTACGAGTGGCAAGTTTACAAgtgcgtctcgaaccgactcagtcctttctatcctttgctacaatgtcattggaattgc----tgttccaattctagcctcatcgtggaggttatttttgtgctgtcgggttcaatctaattaggtcataaatgttaatggtgatgataatccttggttgttgcgcag
upper sequence: GLYMA08G47680.3 (Glycine max), 5'ss of exon 1
lower sequence: PP1S208_44V6.1 (Physcomitrella patens), 5'ss of exon 3
CATTGACTGATTCTTTCGTGTTTCAGGTGGCTTTGAAATTTGAGCACAGGAACAGCAAAGGCTGTAACTATGGCCCTCCTTACGAGTGGCAAGTGTACAAgtaggtgctttgtttatgttgcaagagatatgtgtcgacgattgctttcggttatgcacaagatttgtgtttaagtgaaattgcctgagtttttttatttatttaatgttttgttttgtgaaaag----------------------------
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------------GTTGCGGGTTGAAGTTCGAAC--AAGTTCGAGCATCGGAGTGGTAACGGCTGTAATCATGGTCCTCCTTACGAGTGGCAAGTTTACAAgtgcgtctcgagctcgtaccatt-gtgatttcactcttgagatgtgattactagtgtcgcaattacctttctgcatttcttattttcatcattcaaatgtgattagggctt-gtctcctaaacctccatggttgacgcggattctttctccag
upper sequence: GLYMA08G47680.3 (Glycine max), 5'ss of exon 1
lower sequence: EFJ19085 (Selaginella moellendorffii), 5'ss of exon 3
CATTGACTGATTCTTTCGTGTTTCAGGTGGCTTTGAAATTTGAGCACAGGAACAGCAAAGGCTGTAACTATGGCCCTCCTTACGAGTGGCAAGTGTACAAgtaggtgctttgtttatgttgcaagagatatgtgtcgacgattgctttcggttatgcacaagatttgtgtttaagtgaaattgcctgagtttttttatttatttaatgttttgttttgtgaaaag
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--------------------------GTTGCTCTCAAGTTCGAGCATAGGAGCAGCAAAGGTTGCAACTATGGGCCTCCTTACGAATGGCAGGTTTACGAgtgagtagttctaccatg-------agtcttttctctatagtt--tctaagttttggttgatag-------------------------------------------------------------
upper sequence: GLYMA08G47680.3 (Glycine max), 5'ss of exon 1
lower sequence: EFJ31718 (Selaginella moellendorffii), 5'ss of exon 3
CATTGACTGATTCTTTCGTGTTTCAGGTGGCTTTGAAATTTGAGCACAGGAACAGCAAAGGCTGTAACTATGGCCCTCCTTACGAGTGGCAAGTGTACAAgtaggt-gctttgtttatgttgcaagagatatgtgtcgacgattgctttcggttatgcacaagatttgtgtttaagtgaaattgcctgagtttttttatttatttaatgttttgttttgtgaaaag
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--------------------------GTTGCTTTGAAGTTTGAACACAGAAGCAGTAAAGGATGCAACTATGGGCCTCCGTATGAGTGGCAAGTTTACACgtatgtagcattgttttggctttt-----tttttctttgtgttttgtttctaagctat-cgtgttttatgtttgcag-------------------------------------------------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|209715930|gb|BW650947.1|BW650947EST: AACAGCAAAGGCTGTAACTATGGCCCTCCTTACGAGTGGCAAGTGTACAA CACCCTTGGTGGCAGTCATGGAATACCTAAAGTACACTACAAAGGGAGACA
genomic: AACAGCAAAGGCTGTAACTATGGCCCTCCTTACGAGTGGCAAGTGTACAAgtaggtgctt ... ttgtgaaaagCACCCTTGGTGGCAGTCATGGAATACCTAAAGTACACTACAAAGGGAGACA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CATTGACTGATTCTTTCGTGTTTCAGGTGGCTTTGAAATTTGAGCACAGGAACAGCAAAGGCTGTAACTATGGCCCTCCTTACGAGTGGCAAGTGTACAAgtaggtgctttgtttatgttgcaagagatatgtgtcgacgattgctttcggttatgcacaagatttgtgtttaagtgaaattgcctgagtttttttatttatttaatgttttgttttgtgaaaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG