Sequence
atgc intronic sequence ATGC exonic sequence...atataagtaataatccagaaaaaacaatggttctcattcagaagctgtttttgcaaacaattccaaaaagttgttcttaaatatctatctgtacttgcagAACTTTGACTCCTGGTCATGATCCTGTACAAAAAGTAACCTTAGTTCCTCGCGGGCAAGCTCGTGGTCTTACTTGGTTCATTCCTGCTGATGACCCAACT
Basic information
species | Glycine max |
transcript | GLYMA09G05820.2 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G05820.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G087598_T02 (Zea mays), 3'ss of exon 2
-atataagtaataatccagaaaaaaca-atggttctcattcagaagctgtttttgcaaacaattccaaaaagttgttcttaaatatctatctgtacttgcagAACTTTGACTCCTGGTCATGATCCTGTACAAAAAGTAACCTTAGTTCCTCGCGGGCAAGCTCGTGGTCTTACTTGGTTCATTCCTGCTGATGACCCAACT
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cttttgatttattggactgcctttttgtatgtcttttccttggtaaccattccat--gtcaaatttatctcattgatttgtggagtggaaatctctttgcagAACTTTGACGCCTGGCCATGATCCTGTCCAAAAGGTTACCTTAGTTCCAAGGGGTCAAGCTCGTGGTCTTACATGGTTTATCCCGATGGATGACCCAACA
upper sequence: GLYMA09G05820.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G110408_T01 (Zea mays), 3'ss of exon 3
atataagtaataatccagaaaaaacaatggttctcattcagaagctgtttttgcaaacaattccaa---aaagttgttcttaaa--tatctatctgta--------cttgcagAACTTTGACTCCTGGTCATGATCCTGTACAAAAAGTAACCTTAGTTCCTCGCGGGCAAGCTCGTGGTCTTACTTGGTTCATTCCTGCTGATGACCCAACT
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-------------ttttgagttattggagtgccttttgtacgcgatttccttggtaaccattccatgccaaatttgtacctaatctcattcatttgtggaaacctctttgcagAACTTTGACACCTGGCCATGATCCTGTCCAAAAGGTTACCTTAATCCCAAGGGGTCAAGCTCGTGGTCTTACATGGTTTATCCCGATGGATGACCCAACA
upper sequence: GLYMA09G05820.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv12s0028g01600.t01 (Vitis vinifera), 3'ss of exon 3
----atataagtaataatccagaaaaaaca---atggttctcattcagaagctgtttttgcaaacaattccaaaaagttgttcttaaatatctatctgtacttgcagAACTTTGACTCCTGGTCATGATCCTGTACAAAAAGTAACCTTAGTTCCTCGCGGGCAAGCTCGTGGTCTTACTTGGTTCATTCCTGCTGATGACCCAACT
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ttctccatgtgttttatgcctataatcatatgtacagtttacaactaaa---ttcattgtcaaagaacttatgaactcttttctttgattcctttt----cttgcagAACTTTGACCCCAGGACACGATGCCGTTCAGAAAGTCACCCTGATCCCTCGTGGTCAAGCACGGGGTCTTACATGGTTCATTCCTTCTGATGACCCTACCMapped 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|48575696|gb|CO036527.1|CO036527EST: AAGAGCAAAAGCTTAGTGGCATATCATGAAGTTGGGCATGCTATTTGTGG AACTTTGACTCCTGGTCATGATCCTGTAC
genomic: AAGAGCAAAAGCTTAGTGGCATATCATGAAGTTGGGCATGCTATTTGTGGgtaagccaaa ... gtacttgcagAACTTTGACTCCTGGTCATGATCCTGTAC
EST:
gi|18692866|gb|BM521714.1|BM521714EST: AAGAGCAAAAGCTTAGTGGCATATCATGAAGTTGGGCATGCTATTTGTGG AACTTTGACTCCTGGTCATGATCCTGTACAAAAAGTAACCTTAGTT
genomic: AAGAGCAAAAGCTTAGTGGCATATCATGAAGTTGGGCATGCTATTTGTGGgtaagccaaa ... gtacttgcagAACTTTGACTCCTGGTCATGATCCTGTACAAAAAGTAACCTTAGTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtttttgcaaacaattccaaaaagttgttcttaaatatctatctgtacttgcagAACTTTGACTCCTGGTCATGATCCTGTACAAAAAGTAACCTTAGTTCCTCGCGGGCAAGCTCGTGGTCTTACTTGGTTCATTCCTGCTGATGACCCAACT
ttcttaaatatctat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atataagtaataatccagaaaaaacaatggttctcattcagaagctgtttttgcaaacaattccaaaaagttgttcttaaatatctatctgtacttgcagAACTTTGACTCCTGGTCATGATCCTGTACAAAAAGTAACCTTAGTTCCTCGCGGGCAAGCTCGTGGTCTTACTTGGTTCATTCCTGCTGATGACCCAACT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT