Sequence
atgc intronic sequence ATGC exonic sequenceGGATCAGAAAATTCTTGAAAGGCTTCGAGCTGAAAGGCAAGAAAAAATTGATGAGCTCAAAGAAAGGACAAATTATTACACTACACAACAGCTCATTCAGgtgattgtttgaggcaaggcttgttacatggttttcaatatcaccattctttcatttcatggcgtttggagtggacaaaataactttggggttgtagtct...
Basic information
species | Glycine max |
transcript | GLYMA04G07860.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA04G07860.1 (Glycine max), 5'ss of exon 4
lower sequence: AT4G31080.1 (Arabidopsis thaliana), 5'ss of exon 4
GGATCAGAAAATTCTTGAAAGGCTTCGAGCTGAAAGGCAAGAAAAAATTGATGAGCTCAAAGAAAGGACAAATTATTACACTACACAACAGCTCATTCAGgtgattgtttgaggcaaggcttgttacatggttttcaatatcaccattcttt-catttcatggcgtttggagtggacaaaataactttggggttgtagtct---
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AGATCAAAAGACCTTGGAAAAGCTTCGAGCTGAAAGGTTGGCGAAAATCAATGAACTTAAAGAAAGGACCAATTATTATACCACACAACAACTTATTCAGgtgagattactagtcttgagaacacagagaatttgtggtaattccgtttatgacaagtactgattcttccaacggttatcat----ttatagttactggatagt
upper sequence: GLYMA04G07860.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv02s0033g01150.t01 (Vitis vinifera), 5'ss of exon 5
GGATCAGAAAATTCTTGAAAGGCTTCGAGCTGAAAGGCAAGAAAAAATTGATGAGCTCAAAGAAAGGACAAATTATTACACTACACAACAGCTCATTCAGgtgattgtttgaggcaaggcttgttacatggttttcaatatcaccattctttcatttcatgg--cgtttgga---gtggacaaaataactttggggttgtagtct
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GGATCAGAAAACTCTAGAGCGCCTTCGAGCCGAAAGACGAGCAAAAATTGATGAACTCAAAGAGAGGACAAATTATTATACCACACAACAGCTCATTCAGgtgatgattagccatatc-ctcattgcatttgctccatcatcaccataaatctctttttgggatcctttagttttatgttttagaaggctgggagattttc----
upper sequence: GLYMA04G07860.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv00s0432g00020.t01 (Vitis vinifera), 5'ss of exon 1
GGATCAGAAAATTCTTGAAAGGCTTCGAGCTGAAAGGCAAGAAAAAATTGATGAGCTCAAAGAAAGGACAAATTATTACACTACACAACAGCTCATTCAGgtgattgtttgaggcaaggcttgttacatggtt-----------ttcaatatcaccat---tctttcatttcatggcgtttggagtggacaaaataactttggggttgtagtct
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GGACCAGAAAACTCTGGAAAGGCTTCGGGCTGAAAGGCAAGCAAAGATTGATGAGCTTAAGGAAAAGACAAATTACTATATTACTCAACAGCTCATTCAGgtgataatcggaagttaactatattttcaaattctttttccttcttcaatatcactataaatctctattttcatttttttttttttttttgaaagaagtt--------------
upper sequence: GLYMA04G07860.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv00s0215g00090.t01 (Vitis vinifera), 5'ss of exon 4
GGATCAGAAAATTCTTGAAAGGCTTCGAGCTGAAAGGCAAGAAAAAATTGATGAGCTCAAAGAAAGGACAAATTATTACACTACACAACAGCTCATTCAGgtgattgtttgaggcaaggcttgttacatggttttcaatatcaccattctttcatttcatggcgtttggagtggacaaaataactttggggttgtagtct--
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GGACCAGAAAACTCTGGAAAGGCTTCGGGCTGAAAGGCAAGCAAAGATTGATGAGCTTAAGGAAAAGACAAATTACTATATTACTCAACAGCTCATTCAGgtgataatcggaagttaactatattttcaaattctt--tttccttcttcaatatcactataaatctctattttcattttttttttttttgaaagaagttaatMapped 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|209718889|gb|BW669076.1|BW669076EST: ATGAGCTCAAAGAAAGGACAAATTATTACACTACACAACAGCTCATTCAG AGATATGATCCAGACCCGGCCGCAAAAGCAGCTGCTGCAAGTGTTTTAGCA
genomic: ATGAGCTCAAAGAAAGGACAAATTATTACACTACACAACAGCTCATTCAGgtgattgttt ... atctactcagAGATATGATCCAGACCCGGCCGCAAAAGCAGCTGCTGCAAGTGTTTTAGCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGATCAGAAAATTCTTGAAAGGCTTCGAGCTGAAAGGCAAGAAAAAATTGATGAGCTCAAAGAAAGGACAAATTATTACACTACACAACAGCTCATTCAGgtgattgtttgaggcaaggcttgttacatggttttcaatatcaccattctttcatttcatggcgtttggagtggacaaaataactttggggttgtagtct
- - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggagtgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggggttg