Sequence
atgc intronic sequence ATGC exonic sequencegttagttcattgacattattgttgttggttgcagttcgtaccaagtaccattgtgattgtggtaatggctgtcaactaatgattgttttgatgtttcttttgtacacatcattgtctaatgtttctctttcataatcttactagcgccacacatttttagtagGTTGTAAATGGACTGCTTCAGAGGCAGGACTGGGACACTGCAATTAAGATGCCCCTTGGAGTAGTTCCTGCAG
Basic information
species | Glycine max |
transcript | GLYMA08G06300.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G06300.1 (Glycine max), 3'ss of exon 3
lower sequence: AT4G21534.1 (Arabidopsis thaliana), 3'ss of exon 3
gttagttcattgacattattgttgttggttgcagttcgtaccaagtaccattgtgattgtggtaatggctgtcaactaatgattgttttgatgtttcttttgtacacatcattgtctaatgtttctctttcataatcttactagcgccacacatttttagtagGTTGTAAATGGACTGCTTCAGAGGCAGGACTGGGACACTGCAATTAAGATGCCCCTTGGAGTAGTTCCTGCAG
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--------------------------------------------------------ttgttaaattatatgtttactctt--ttgcttaggtttgactctggggttaaacaatc----attttattgttgctgattcttacacttggttcctaattt-agtagGTTGTAAATGGACTGCTCGAAAGAGCAGACTGGAGAAATGCCTTAAAATTGCCTATTGGAATGGTCCCTGCAG
upper sequence: GLYMA08G06300.1 (Glycine max), 3'ss of exon 3
lower sequence: AT4G21540.1 (Arabidopsis thaliana), 3'ss of exon 3
gttagttcattgacattattgttgttggttgcagttcgtaccaagtaccattgtgattgtggtaatggctgtcaactaatgattgttttgatgtttcttttgtac-acatcattgtc-taatgtttctctttcataatcttactagcgccacacatttttagtagGTTGTAAATGGACTGCTTCAGAGGCAGGACTGGGACACTGCAATTAAGATGCCCCTTGGAGTAGTTCCTGCAG
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--------------------------------------------------------ttgtttaattatatgtttactgtt--ttgcttatgtttgactctgggattagaaaattattgtattggtagtgattcttaaa---attggttcctaa----tttagtagGTTGTAAATGGACTGCTTGAAAGAGAAGACTGGAAGACTGCCATAAAATTGCCGATCGGAATGGTCCCTGCAG
upper sequence: GLYMA08G06300.1 (Glycine max), 3'ss of exon 3
lower sequence: AT4G21540.2 (Arabidopsis thaliana), 3'ss of exon 3
gttagttcattgacattattgttgttggttgcagttcgtaccaagtaccattgtgattgtggtaatggctgtcaactaatgattgttttgatgtttcttttgtac-acatcattgtc-taatgtttctctttcataatcttactagcgccacacatttttagtagGTTGTAAATGGACTGCTTCAGAGGCAGGACTGGGACACTGCAATTAAGATGCCCCTTGGAGTAGTTCCTGCAG
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-----------------------------------------------------ctcttgtttaattatatgtttactgtt--ttgcttatgtttgactctgggattagaaaattattgtattggtagtgattcttaaa---attggttcctaa----tttagTAGGTTGTAAATGGACTGCTTGAAAGAGAAGACTGGAAGACTGCCATAAAATTGCCGATCGGAATGGTCCCTGCAGMapped 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|151397505|gb|EV267378.1|EV267378EST: CAAAGTACGATGGGATTGTTTGTGTTAGTGGAGATGGGATCTTGGTCGAG GTTGTAAATGGACTGCTTCAGAGGCAGGACTGGGACACTGCAATTAAGATG
genomic: CAAAGTACGATGGGATTGTTTGTGTTAGTGGAGATGGGATCTTGGTCGAGgttagttcat ... tttttagtagGTTGTAAATGGACTGCTTCAGAGGCAGGACTGGGACACTGCAATTAAGATG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcattgtctaatgtttctctttcataatcttactagcgccacacatttttagtagGTTGTAAATGGACTGCTTCAGAGGCAGGACTGGGACACTGCAATTAAGATGCCCCTTGGAGTAGTTCCTGCAG
atcttac putative branch site (score: 3)
cattttt putative PPT
atttttagta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagttcattgacattattgttgttggttgcagttcgtaccaagtaccattgtgattgtggtaatggctgtcaactaatgattgttttgatgtttcttttgtacacatcattgtctaatgtttctctttcataatcttactagcgccacacatttttagtagGTTGTAAATGGACTGCTTCAGAGGCAGGACTGGGACACTGCAATTAAGATGCCCCTTGGAGTAGTTCCTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG