Sequence
atgc intronic sequence ATGC exonic sequencegtaagtaatcaattactagtcactttctctgacatactctaattaatgcaccgtttggacaatttcactccttaattaatcaattattaactcactctttttaattattcttccagGATTATAATGCAAAACTTTCCGATTTTGGCTTGGCCAAAGATGGTCCTGAAGGAGATGACACACACGTTTCAACTAGAGTCATGGGCACACAAGGCTATG
Basic information
species | Glycine max |
transcript | GLYMA17G05660.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G05660.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os10g25550.1 (Oryza sativa), 3'ss of exon 3
gtaagtaatcaattactagtcactttctctgacatactctaattaatgcaccgtttggacaatttcactccttaattaatcaattattaactcactctttttaattattcttccagGATTATAATGCAAAACTTTCCGATTTTGGCTTGGCCAAAGATGGTCCTGAAGGAGATGACACACACGTTTCAACTAGAGTCATGGGCACACAAGGCTATG
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gcaatttatcaaatggaaag----------gaaatattggagagcttctcccatcctggtagctgttgtc----atatgacattttgtgactgacattgtttaattattggt--agGACTACGAAGCAAAACTTTCGGATTTCGGACTGGCCAAAGATGGGCCTCAAGAAGACGAGACACATGTCTCCACTAGAGTGATGGGCACACAGGGCTATG
upper sequence: GLYMA17G05660.1 (Glycine max), 3'ss of exon 3
lower sequence: AT2G05940.1 (Arabidopsis thaliana), 3'ss of exon 3
------------------------------------------------------------------------------gtaagtaatcaattactagtcactttctctgacatactctaattaatgcaccgtttggacaatttcactccttaattaatcaattattaactcactctttttaattattcttccagGATTATAATGCAAAACTTTCCGATTTTGGCTTGGCCAAAGATGGTCCTGAAGGAGATGACACACACGTTTCAACTAGAGTCATGGGCACACAAGGCTATG
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gtaagtaacaaaaaatccaacccgatttttactcttaaagtctctacagtcaaagtttttacagtcaaatttcttacagcaa--aagcgtttacaaccgaaattaacagtcgt-taccaatcagcccttattttccaatttataattcctaaagttctaaa----gaagctcctataccaaatcttgttttcagGATTACACGGCGAAACTCTCTGACTTCGGGTTAGCCAAAGACGGACCAGAAGGAGACGACACTCATGTGTCAACTCGAGTGATGGGCACACAAGGCTACG
upper sequence: GLYMA17G05660.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv11s0016g01060.t01 (Vitis vinifera), 3'ss of exon 3
gtaagtaatcaattactagtcactttctctgacatactctaattaatgcaccgtttggacaatttcactccttaattaatcaattattaactcactctttttaattattcttccagGATTATAATGCAAAACTTTCCGATTTTGGCTTGGCCAAAGATGGTCCTGAAGGAGATGACACACACGTTTCAACTAGAGTCATGGGCACACAAGGCTATG
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----gtaagcttctgctccccccttgtttgagagtactttca-----gcattgttg-------ttggctttctttgtgatcaatgac-------cttatggtgatactattttcagGATCATACTCCCAAATTATCAGATTTTGGTCTAGCCAAGGACGGCCCTGAAGGTGATGACACACATGTTTCAACCCGAGTAATGGGGACACAAGGGTATGMapped 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|23064506|gb|BU579279.1|BU579279EST: AACCAGTCATCTATAGAGATTTTAAAGCTTCAAACATCTTGTTAGACTCG GATTATAATGCAAAACTTTCCGATTTTGGCTTGGCCAAAGATGGTCCTGAA
genomic: AACCAGTCATCTATAGAGATTTTAAAGCTTCAAACATCTTGTTAGACTCGgtaagtaatc ... attcttccagGATTATAATGCAAAACTTTCCGATTTTGGCTTGGCCAAAGATGGTCCTGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttcactccttaattaatcaattattaactcactctttttaattattcttccagGATTATAATGCAAAACTTTCCGATTTTGGCTTGGCCAAAGATGGTCCTGAAGGAGATGACACACACGTTTCAACTAGAGTCATGGGCACACAAGGCTATG
ttattcttcc CT-rich tract
ttaattaatcaattat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtaatcaattactagtcactttctctgacatactctaattaatgcaccgtttggacaatttcactccttaattaatcaattattaactcactctttttaattattcttccagGATTATAATGCAAAACTTTCCGATTTTGGCTTGGCCAAAGATGGTCCTGAAGGAGATGACACACACGTTTCAACTAGAGTCATGGGCACACAAGGCTATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG