Sequence
atgc intronic sequence ATGC exonic sequenceCAAAAATGTTGCACATTTGACTCATGTGAGTGAAATGGAAAAGAAGATTGAGACATTGGCAAGGATTACTACTATACTCAAAGATGTTATTCAGAACAAGgtaatgtaatctgtccactttagctaccactgctttagtgcatcacaatcaaattttccaggtttattttattattcttcacatttatataatataaaag...
Basic information
species | Glycine max |
transcript | GLYMA20G28950.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G28950.2 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G151580_T01 (Zea mays), 5'ss of exon 3
CAAAAATGTTGCACATTTGACTCATGTGAGTGAAATGGAAAAGAAGATTGAGACATTGGCAAGGATTACTACTATACTCAAAGATGTTATTCAGAACAAGgtaatgtaatctgtccactttagctaccactgctttagtgcatcacaatcaaattttccaggtt-tattttattattcttcacatttatataatataaaag---------------------------------------------------------------
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TAAAAACATTGCTCATTTGACTCATGTGAGTGAGATGGAAAAGAAGTGCGAGTCTTTGGCCAGAATGACTGCAATTTTGAAAGATGTAATTCAGAACAAGgtaatataagccacatacctgcattgt-attattct--tgcttcctttcttgagtttcaaggttatatgttgtt-ttagtcagatgtgtcaagagcagttacatatgcattagccagttgatcacttgatctacgtgtctaaaattgtgtctattgtctatcag
upper sequence: GLYMA20G28950.2 (Glycine max), 5'ss of exon 4
lower sequence: AT2G32980.1 (Arabidopsis thaliana), 5'ss of exon 3
CAAAAATGTTGCACATTTGACTCATGTGAGTGAAATGGAAAAGAAGATTGAGACATTGGCAAGGATTACTACTATACTCAAAGATGTTATTCAGAACAAGgtaatgtaatctgtccactttagctaccactgctttagtgcatcacaatcaaattttccaggtttat-tttat-tattcttcacatttatataatataaaag-
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TAAAAATGTGGCGCATTTGACTCATGTTGGTGAAATGCAAAAGAAAATCGAGACTTTGTCAAGGATTACTCAAATATTGAAAGATGTTATACAAAACAAGgtaggatcatttttcctttctacttacctctaaaatcttctctctctttt---ttttctggactaaggtttatgtatctttcgagttcatttatctctctttt
upper sequence: GLYMA20G28950.2 (Glycine max), 5'ss of exon 4
lower sequence: Vv12s0059g01290.t01 (Vitis vinifera), 5'ss of exon 3
CAAAAATGTTGCACATTTGACTCATGTGAGTGAAATGGAAAAGAAGATTGAGACATTGGCAAGGATTACTACTATACTCAAAGATGTTATTCAGAACAAGgtaatgtaatctgtcc--actttagctaccactgctttagtgcatca-caatcaaattttccaggtttattttattattcttcacatttatataatataaaag
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TAAGAATGTGGCACATCTCACGCATGTAAGTGAAATGGAAAAGAAGTGTGAGACTTTAGCAAGGATTACTGCTATATTGAAAGATGTTATTCAAAATAAGgtgatgtatttggttctaattttgttcatcatagcctacttgaattggtattctagtgtttcatatgccttggttgcagtgtcatgctt-catcttaataa--
upper sequence: GLYMA20G28950.2 (Glycine max), 5'ss of exon 4
lower sequence: EFJ17288 (Selaginella moellendorffii), 5'ss of exon 3
CAAAAATGTTGCACATTTGACTCATGTGAGTGAAATGGAAAAGAAGATTGAGACATTGGCAAGGATTACTACTATACTCAAAGATGTTATTCAGAACAAGgtaatgtaatctgtccactttagctaccactgctttagtgcatcacaatcaaattttccaggtttattttattattcttcacatttatataatataaaag
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TGAGAGCGTCTCCCATCTCACGCACGTAAGTGGTATAGAGAAGAAATGCCAGGCCTTGGCAAGGACTACGACTAAACTGAAAGATGTTATTCAGAACAAGg-----taatcttttttcctctgcgatgatcacttagctgttctatgctcttgtggtcag----------------------------------------
upper sequence: GLYMA20G28950.2 (Glycine max), 5'ss of exon 4
lower sequence: EFJ30886 (Selaginella moellendorffii), 5'ss of exon 3
CAAAAATGTTGCACATTTGACTCATGTGAGTGAAATGGAAAAGAAGATTGAGACATTGGCAAGGATTACTACTATACTCAAAGATGTTATTCAGAACAAGgtaatgtaatctgtccactttagctaccactgctttagtgcatcacaatcaaattttccaggtttattttattattcttcacatttatataatataaaag
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TGAGAGCGTCTCCCATCTCACGCACGTAAGTGGTATAGAGAAGAAATGCCAGGCCTTGGCAAGGACTACGACTAAACTGAAAGATGTTATTCAGAACAAGg-----taatcttttttcctctgcgatgatcacttagctgttctatgctcttgtgg-ccag---------------------------------------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|208024965|gb|GD822411.1|GD822411EST: AAGATGTTATTCAGAACAAG GATCGCATTATAGCTCGCCTACAGCAGCCGTATTCCCTTGATTGCATTCCT
genomic: AAGATGTTATTCAGAACAAGgtaatgtaat ... aatttggcagGATCGCATTATAGCTCGCCTACAGCAGCCGTATTCCCTTGATTGCATTCCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CAAAAATGTTGCACATTTGACTCATGTGAGTGAAATGGAAAAGAAGATTGAGACATTGGCAAGGATTACTACTATACTCAAAGATGTTATTCAGAACAAGgtaatgtaatctgtccactttagctaccactgctttagtgcatcacaatcaaattttccaggtttattttattattcttcacatttatataatataaaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG