Sequence
atgc intronic sequence ATGC exonic sequencegtaaatttttctaccacatttatgtgtattggcatttagttactaataatagtcacaaagtcttcactcttatttatcctgcttgtttggtaaatttcaccgttttgtggtacaatgcagGACATAAAATTTGCAGTTCATGCACATCCAACTTTGTCCGAGGTTCTTGATGAACTATTCAAATCAGCAAAG
Basic information
species | Glycine max |
transcript | GLYMA07G37050.1 |
intron # | 13 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G37050.1 (Glycine max), 3'ss of exon 13
lower sequence: LOC_Os01g23610.1 (Oryza sativa), 3'ss of exon 13
gtaaatttttctaccacatttatgtgtattggcatttagttactaataatagtcacaaagtcttcact-cttatttatcctgcttgtttggtaaatttcaccgttttgtggtacaatgcagGACATAAAATTTGCAGTTCATGCACATCCAACTTTGTCCGAGGTTCTTGATGAACTATTCAAATCAGCAAAG
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-----------------------------------------------gtaagtgacgagcattttattgtttatgaatggattgcatttgctcaa---cgctgttt----acatcccccagGACATCAAGTTTGCTGTTCATGCACACCCAACTTTGTCTGAGGTTCTGGATGAGCTCTTCAAAGCTGCCAAG
upper sequence: GLYMA07G37050.1 (Glycine max), 3'ss of exon 13
lower sequence: LOC_Os05g06460.1 (Oryza sativa), 3'ss of exon 13
gtaaatttttctaccacatttatgtgtattggcatttagttactaataatagtcacaaagtcttcactcttatttatcctgcttgtttggtaaatttcac-cgttttgtggtacaatgcagGACATAAAATTTGCAGTTCATGCACATCCAACTTTGTCCGAGGTTCTTGATGAACTATTCAAATCAGCAAAG
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-------------------gtgagtataatgatattatttttcttcacttggttc----gtctttgttagcctttcagcagtataact--tgaatttgacatgatcactcccaccacgcagGACATCAAGTTTGCTGTTCATGCACACCCAACATTGTCCGAGGTGCTGGACGAACTCTTTAAAGCAGCCAAG
upper sequence: GLYMA07G37050.1 (Glycine max), 3'ss of exon 13
lower sequence: GRMZM2G145595_T01 (Zea mays), 3'ss of exon 13
gtaaatttttctaccacatttatgtgtattggcatttagtta-ctaataatagtcacaaagtcttcactcttatttatcctgcttgtttggtaaatttcaccgt--tttgtggtacaatgcagGACATAAAATTTGCAGTTCATGCACATCCAACTTTGTCCGAGGTTCTTGATGAACTATTCAAATCAGCAAAG
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-----------------gtgagtttgtcatg-cattctgttagctgtgtagcatttctgcatttttgttctc-tgcataatgctaaacgcttaaatttgcacataaccttttgtaccctgcagGACATCAAGTTTGCTGTTCATGCACACCCAACGTTGTCTGAAGTTCTGGATGAACTCTTCAAGGCTGCCAAG
upper sequence: GLYMA07G37050.1 (Glycine max), 3'ss of exon 13
lower sequence: AT4G16155.1 (Arabidopsis thaliana), 3'ss of exon 13
gtaaatttttctaccacatttatgtgtattggcatttagttactaataatagtcacaaagtcttcactcttatttatcctgcttgtttggtaaatttcaccgttttgtggtacaatgcagGACATAAAATTTGCAGTTCATGCACATCCAACTTTGTCCGAGGTTCTTGATGAACTATTCAAATCAGCAAAG
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---------------gtctggctgcaaactaacctc---tctccggtattgatcataggactttagattgtga-------gctttttttgt--gtgtctttgtgtgatgata-aatgcagGACATAAAACTTGCTGTTCATGCACATCCAACACTGTCTGAAGTTGTAGACGAACTGTTTAAAGCAGCCAAG
upper sequence: GLYMA07G37050.1 (Glycine max), 3'ss of exon 13
lower sequence: AT3G16950.1 (Arabidopsis thaliana), 3'ss of exon 13
-----------------------------------------gtaaatttttctacc-acatttatgtgtattggcatttagt--tactaataatagtcacaaagtcttc---actc-ttatttatcctgcttgtttggtaaatttcaccgttttgtggta-caatgcagGACATAAAATTTGCAGTTCATGCACATCCAACTTTGTCCGAGGTTCTTGATGAACTATTCAAATCAGCAAAG
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gtaggatttcattgattagtgattactattgaatctagctcgtagcctttgatattgataatatcctacagcgaaatcaagtcatatacatagttcctgctgaaactactaaacgcattatttgtatctgtttcttgatcccctgcatgttttaatggtatctctgcagGACATAAAATTGGCAGTTCATGCACATCCAACACTCTCTGAGGTCCTCGACGAACTGTTCAAAGCAGCCAAGMapped 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|6913436|gb|AW394966.1|AW394966EST: GAAGCATCCAATGCAATTGCATTAGGGACACGTATTCAG GACATAAAATTTGCAGTTCATGCACATCCAACTTTGTCCGAGGTTCTTGAT
genomic: GAAGCATCCAATGCAATTGCATTAGGGACACGTATTCAGgtaaattttt ... tacaatgcagGACATAAAATTTGCAGTTCATGCACATCCAACTTTGTCCGAGGTTCTTGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.actcttatttatcctgcttgtttggtaaatttcaccgttttgtggtacaatgcagGACATAAAATTTGCAGTTCATGCACATCCAACTTTGTCCGAGGTTCTTGATGAACTATTCAAATCAGCAAAG
taaatttca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaatttttctaccacatttatgtgtattggcatttagttactaataatagtcacaaagtcttcactcttatttatcctgcttgtttggtaaatttcaccgttttgtggtacaatgcagGACATAAAATTTGCAGTTCATGCACATCCAACTTTGTCCGAGGTTCTTGATGAACTATTCAAATCAGCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG