Sequence
atgc intronic sequence ATGC exonic sequence...cctagaagtgcttccggataaacttatccgaacaagccctaagtcttgttatttttattattattttgcatgtcaaacttatgggaggtattgactgtagAACATTGGACAAGACTATTTCGAACTTAGAGATGGAATTGGCTGCTGCTAGGGTAACTCAGGAATCTCTACGAAGTGGTGCTCCTATTTCAGATGATATA
Basic information
species | Glycine max |
transcript | GLYMA06G46230.2 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G46230.1 (Glycine max), 3'ss of exon 3
lower sequence: AT1G05170.2 (Arabidopsis thaliana), 3'ss of exon 3
cctagaagtgc---ttccggataaacttatccgaacaagccctaagtcttgttatttttattattattttgcatgtcaaacttatgggaggtattgactgtagAACATTGGACAAGACTATTTCGAACTTAGAGATGGAATTGGCTGCTGCTAGGGTAACTCAGGAATCTCTACGAAGTGGTGCTCCTATTTCAGATGATATA
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-gtaaagtttcaatcttttgctgtgtcatttcaaatataacatagaagttttgatgtttaataatttgttttgtgt---------------tgttacctgcagGACATTGGATAAGACCATTTCAAGCTTAGAGATGGAGTTAGCTGCAGCAAGGTCAGTTCAGGAATCTTTACAAAACGGTGCTCCTTTATCAGATGATATG
upper sequence: GLYMA06G46230.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv12s0059g00640.t01 (Vitis vinifera), 3'ss of exon 3
cctagaagtgcttccggataaacttatccgaacaagccctaagtcttgttatttttattattattttgcatgtcaaacttatgggaggtattgactgtagAACATTGGACAAGACTATTTCGAACTTAGAGATGGAATTGGCTGCTGCTAGGGTAACTCAGGAATCTCTACGAAGTGGTGCTCCTATTTCAGATGATATA
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gtaagtctttgttatgcttatatatttactaatatatcgtacttcatttgattttga--attatcctgaatatgaatcatataacct-tattgcatgtagGACTTTGGATAAAACTATTTCCAATTTAGAGATGGAATTAGCTGCTGCCAGAGCTGCACAAGAATCTATGGTAAACGGTTCTCCAATATCAGAAGACTTGMapped 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|10843671|gb|BF066945.1|BF066945EST: CGCGATAAAGACATTTATGGTGAAGTTTTCAAGAGTCATAATTCCATACA AACATTGGACAAGACTATTTCGAACTTANAGATGGAATTGGCTGCTGCTAG
genomic: CGCGATAAAGACATTTATGGTGAAGTTTTCAAGAGTCATAATTCCATACAgtaagttata ... ttgactgtagAACATTGGACAAGACTATTTCGAACTTAGAGATGGAATTGGCTGCTGCTAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgttatttttattattattttgcatgtcaaacttatgggaggtattgactgtagAACATTGGACAAGACTATTTCGAACTTAGAGATGGAATTGGCTGCTGCTAGGGTAACTCAGGAATCTCTACGAAGTGGTGCTCCTATTTCAGATGATATA
tattgac putative branch site (score: 2)
atttttattattattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cctagaagtgcttccggataaacttatccgaacaagccctaagtcttgttatttttattattattttgcatgtcaaacttatgggaggtattgactgtagAACATTGGACAAGACTATTTCGAACTTAGAGATGGAATTGGCTGCTGCTAGGGTAACTCAGGAATCTCTACGAAGTGGTGCTCCTATTTCAGATGATATA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG