Sequence
atgc intronic sequence ATGC exonic sequence...tttaatgaatttaaaagtgataaatcagagtgttctactacatacattttaacctagctgatacgtgctaactaattatagactatttgctactttgtagAGATCCAAAGTAAATATGATAATCACAGACTATTGCATGCCAGGGATGACAGGCTACGAGCTACTTAAGAAAATTAAG
Basic information
species | Glycine max |
transcript | GLYMA04G40100.2 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA04G40100.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G098474_T01 (Zea mays), 3'ss of exon 2
--tttaatgaatttaaaagtgataaatcagagtgttctactacatacattttaacctag------------------ctgatacgtgctaactaattatagactatttg----ctactttgtagAGATCCAAAGTAAATATGATAATCACAGACTATTGCATGCCAGGGATGACAGGCTACGAGCTACTTAAGAAAATTAAG
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gtattgactcatatagctgtgattcttttctcttttttttcttaccaatttttacacggggatctacgcctttatttctcacccttgttttcgggtcgtatcgtgtatgtatcctatgatatagGAGCCGAACGTGAGTATGATAATCACCGATTACTGCATGCCAGAGATGACGGGATACGAGCTGCTCAAGAAGGTCAAG
upper sequence: GLYMA04G40100.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv13s0067g03070.t01 (Vitis vinifera), 3'ss of exon 2
-----------------------------------------------------tttaatgaatttaaaagtgataaatcagagtgttctactacatacatt-ttaacctagctgatacgtgcta-actaattatagactatt--tgctactttgtagAGATCCAAAGTAAATATGATAATCACAGACTATTGCATGCCAGGGATGACAGGCTACGAGCTACTTAAGAAAATTAAG
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gtatgtcaccttcttttctctccccatgaatgtctttaattttaagaaaaagttttcagaattttatcatttctccttttggaagatcaacaaagaatgtaactaagaaagcctttttgggttatagtaatccatagttgttactaattctatgcagGTTTCAAAGGTGAATTTGATAATTACAGACTACTGTATGCCAGGAATGACAGGCTATGAGCTGCTCAAGAGAGTCAAGMapped 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|298163324|gb|HO012057.1|HO012057EST: CATTGGAGTTATTGGGCTTGACAAGTGGTGGACAGAACAACATGAACGGT AGATCCAAAGTAAATATGATAATCACAGACTATTGCATGCCAGGGATGACA
genomic: CATTGGAGTTATTGGGCTTGACAAGTGGTGGACAGAACAACATGAACGGTgtaagtcttc ... tactttgtagAGATCCAAAGTAAATATGATAATCACAGACTATTGCATGCCAGGGATGACA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attttaacctagctgatacgtgctaactaattatagactatttgctactttgtagAGATCCAAAGTAAATATGATAATCACAGACTATTGCATGCCAGGGATGACAGGCTACGAGCTACTTAAGAAAATTAAG
ctacttt CT-rich tract
taattatagactattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttaatgaatttaaaagtgataaatcagagtgttctactacatacattttaacctagctgatacgtgctaactaattatagactatttgctactttgtagAGATCCAAAGTAAATATGATAATCACAGACTATTGCATGCCAGGGATGACAGGCTACGAGCTACTTAAGAAAATTAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA