Sequence
atgc intronic sequence ATGC exonic sequencegtgagtgtcaaatcacctcattagtaattagtagaaggtcgtgctagaggtaaacataagaaatgaatttaattattaagttcaaaaacttagtcaactataagcatgtatcatttcatctttttcattttaagatctaaagtcttattttcccagaaaagcttacttctttaattttttcagCCACCAAGGTTTAGCTTTTACGATGCAGCAAAACCAATGTATACATCAAGGAGAAACTTACCACCATCAAAGATTGACAATAGCAAG
Basic information
species | Glycine max |
transcript | GLYMA17G01900.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G01900.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os03g52460.1 (Oryza sativa), 3'ss of exon 10
gtgagtgtcaaatcacctcattagtaattagtagaaggtcgtgctagaggtaaacataagaaatgaatttaattattaagttcaaaaacttagtcaactataagcatgtatcatttcatctttttcattttaagatctaaagtcttattttcccagaaaagcttacttctttaattttttcagCCACCAAGGTTTAGCTTTTACGATGCAGCAAAACCAATGTATACATCAAGGAGAAACTTACCACCATCAAAGATTGACAATAGCAAG
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---------------------------------------------------------------------------------tgatggtgatagtactacataggtacgaaattttctttttaaaacagatcaa-atgaaaactctctgtaacttttgatcattt-ttgaattcacttatgcagCCACCGAGATTCAGCTTTTATGATGCTAATAAACCAATGTACACATCACGGAGAAACTTACCGCCATCTATGATCAATAATAGTAAG
upper sequence: GLYMA17G01900.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G391936_T04 (Zea mays), 3'ss of exon 10
gtgagtgtcaaatcacctcattagtaattagtagaaggtcgtgctagaggtaaacataagaaatgaatttaattattaagttcaaaaacttagtcaactataagcatgtatcatttcatctttttcattttaagatctaaagtcttattttcccagaaaagcttacttctttaattttttcagCCACCAAGGTTTAGCTTTTACGATGCAGCAAAACCAATGTATACATCAAGGAGAAACTTACCACCATCAAAGATTGACAATAGCAAG
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--------------------------------------------------------------------tcattttctcagctctggca-ttattcttttgaatgtttgtggtgttgcag-----tgattgtgaaacattgaactct-tttgctca--------cctttgattgaactatgcagCCTCCAAGGTTCAGTTTCTACGATGCTGACAAACCAATGTATACATCACGGAGAAACCTACCACCATCTATGGTCAACAATA-----
upper sequence: GLYMA17G01900.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G391936_T01 (Zea mays), 3'ss of exon 6
gtgagtgtcaaatcacctcattagtaattagtagaaggtcgtgctagaggtaaacataagaaatgaatttaattattaagttcaaaaacttagtcaactataagcatgtatcatttcatctttttcattttaagatctaaagtcttattttcccagaaaagcttacttctttaattttttcagCCACCAAGGTTTAGCTTTTACGATGCAGCAAAACCAATGTATACATCAAGGAGAAACTTACCACCATCAAAGATTGACAATAGCAAG
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--------------------------------------------------------------------tcattttctcagctctggca-ttattcttttgaatgtttgtggtgttgcag-----tgattgtgaaacattgaactct-tttgctca--------cctttgattgaactatgcagCCTCCAAGGTTCAGTTTCTACGATGCTGACAAACCAATGTATACATCACGGAGAAACCTACCACCATCTATGGTCAACAATAGTAAG
upper sequence: GLYMA17G01900.1 (Glycine max), 3'ss of exon 10
lower sequence: AT5G19220.1 (Arabidopsis thaliana), 3'ss of exon 10
gtgagtgtcaaatcacctcattagtaattagtagaaggtcgtgctagaggtaaacataagaaatgaatttaattattaagttcaaaaacttagtcaactataagcatgtatcatttcatctttttcattttaagatctaaagtcttattttcccagaaaagcttacttctttaattttttcagCCACCAAGGTTTAGCTTTTACGATGCAGCAAAACCAATGTATACATCAAGGAGAAACTTACCACCATCAAAGATTGACAATAGCAAG
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---------------------------------------------------------------------------gtaaagacaaatattctcccag--acaactttcttttccaagatattgttcacaatcatatatagt-tgttatatt--aaatataacttacgtctaca--ccttttagCCTGGGGCATTTAGTTTCTACGACGCGGCAAAACCAATATATACATCAAGGAGAAACCTGCCACCATCAAAAATAGACAACTCTAAG
upper sequence: GLYMA17G01900.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv05s0020g02880.t01 (Vitis vinifera), 3'ss of exon 10
gtgagtgtcaaatcacct-cattagtaattagtagaaggtcgtgctagaggtaaacataagaaatgaatttaattattaagttcaaaaacttagtcaactataagcatgtatcatttcatctttttcattttaagatctaaagtcttattttcccagaaaagcttacttctttaattttttcagCCACCAAGGTTTAGCTTTTACGATGCAGCAAAACCAATGTATACATCAAGGAGAAACTTACCACCATCAAAGATTGACAATAGCAAG
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gtatgtattggaacatatatatatatcattgctcttaatcagcttctaagttc----taaggctcatgtcttatgtttggtattaggga--aaaactgtttgagggaaatgctgcccaacctt----agtctgagtttcacatggcaatgatttaagtttta--taattcttcatgtttttcagCCACCAAGGTTTAGTTTTTATGATGCAACAAAGCCAATGTACACATCAAGAAGAAATTTACCACCTTCAAAGATCGATGATAGCAAGMapped 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|31460377|gb|CD402345.1|CD402345EST: TAGGGACTATCAGATCCTTCTTCGAGGCAAATCTTGCCCTCACTGAGCAT CCACCAAGGTTTAGCTTTTACGATGCAGCAAAACCAATGTATACATCAAGG
genomic: TAGGGACTATCAGATCCTTCTTCGAGGCAAATCTTGCCCTCACTGAGCATgtgagtgtca ... attttttcagCCACCAAGGTTTAGCTTTTACGATGCAGCAAAACCAATGTATACATCAAGG
EST:
gi|10235231|gb|BE804178.1|BE804178EST: TAGGGACTATCAGATCCTTCTTCGAGGCAAATCTTGCCCTCACTGAGCAT CCACCAAGGTTTAGCTTTTACGATGCAGCAAAACCAATGTATACATCAAGG
genomic: TAGGGACTATCAGATCCTTCTTCGAGGCAAATCTTGCCCTCACTGAGCATgtgagtgtca ... attttttcagCCACCAAGGTTTAGCTTTTACGATGCAGCAAAACCAATGTATACATCAAGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttaagatctaaagtcttattttcccagaaaagcttacttctttaattttttcagCCACCAAGGTTTAGCTTTTACGATGCAGCAAAACCAATGTATACATCAAGGAGAAACTTACCACCATCAAAGATTGACAATAGCAAG
cttctttaattttttc CT-rich tract
ttacttctttaatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtgtcaaatcacctcattagtaattagtagaaggtcgtgctagaggtaaacataagaaatgaatttaattattaagttcaaaaacttagtcaactataagcatgtatcatttcatctttttcattttaagatctaaagtcttattttcccagaaaagcttacttctttaattttttcagCCACCAAGGTTTAGCTTTTACGATGCAGCAAAACCAATGTATACATCAAGGAGAAACTTACCACCATCAAAGATTGACAATAGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG