Sequence
atgc intronic sequence ATGC exonic sequence...ttttctctttctggttctaaagttggtttatgtatgatggttcaaagtttggaaattcttgaaccaataatctctattgatatggtgattttccttgtagGATGAGGCTGGAACAGCAGCCATTAAAACTGTTGAACTCGATGCGTCTCTTGGAGGACGTGCAGTGCAACACAGGGAAATTCAAGGGCATGAATCCGACA
Basic information
species | Glycine max |
transcript | GLYMA03G29280.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G29280.1 (Glycine max), 3'ss of exon 3
lower sequence: AT2G41740.1 (Arabidopsis thaliana), 3'ss of exon 4
ttttctctttctggttctaaagttggtttatgtatgatggttcaaagtttggaaattcttgaaccaataatctctattg----atatggtgattt--tccttgtagGATGAGGCTGGAACAGCAGCCATTAAAACTGTTGAACTCGATGCGTCTCTTGGAGGACGTGCAGTGCAACACAGGGAAATTCAAGGGCATGAATCCGACA
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------gtacttatctccaagactcttttatttagtaaagactgtttttggaagagaatgcaaaggtgaaactgtgttttactaaattatggtttgatgattttagGATGAAGCTGGAACAGCAGCTGTTAAAACAGTTGAACTCGATGCAGTTCTTGGAGGCCGTGCTGTCCAACACCGGGAAATTCAGGGTCATGAATCTGACA
upper sequence: GLYMA03G29280.1 (Glycine max), 3'ss of exon 3
lower sequence: AT3G57410.1 (Arabidopsis thaliana), 3'ss of exon 5
ttttctctttctggttctaaagttggtttatgtatgatggttcaaagtttggaaattcttgaaccaataatctctattgatatggtgattttccttgtagGATGAGGCTGGAACAGCAGCCATTAAAACTGTTGAACTCGATGCGTCTCTTGGAGGACGTGCAGTGCAACACAGGGAAATTCAAGGGCATGAATCCGACA
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gtatttatttttgggcatga---tag--catatattacg-ttctaaatttgaatcgtcatta-ttactaatctgcgat----tgataattcc------agGATGAAGCTGGAACAGCAGCTGTCAAGACAGTTGAACTTGATGCAGCTCTTGGAGGCCGAGCTGTCCAATATCGTGAAATTCAAGGTCATGAATCTGACA
upper sequence: GLYMA03G29280.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv08s0007g08690.t01 (Vitis vinifera), 3'ss of exon 3
ttttctctttctggttctaaagttggtttatgtatgatggttcaaagtttggaaattcttgaaccaataatctctattgatatggtgattttccttgtagGATGAGGCTGGAACAGCAGCCATTAAAACTGTTGAACTCGATGCGTCTCTTGGAGGACGTGCAGTGCAACACAGGGAAATTCAAGGGCATGAATCCGACA
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-gtattactacttccttttgttcttattcagaaattaca-cttgtagtaaaataacgtttatgcttgaaattgcaact--tctggt----cttatcatagGATGAATCTGGAACAGCAGCTATAAAAACTGTTGAGCTTGATACTGTTCTTGGAGGGCGTGCAGTACAACACAGAGAACTTCAAGGCTACGAGTCTGACAMapped 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|7285797|gb|AW598284.1|AW598284EST: GTGCTTATTTGTATGATATTCACTTCTGGATTGGAAAGGATACAAGTCAG GATGAGGCTGGAACAGCAGCCATTAAAACTGTTGAACTCGATGCGTCTCTT
genomic: GTGCTTATTTGTATGATATTCACTTCTGGATTGGAAAGGATACAAGTCAGgtaagtttac ... ttccttgtagGATGAGGCTGGAACAGCAGCCATTAAAACTGTTGAACTCGATGCGTCTCTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agtttggaaattcttgaaccaataatctctattgatatggtgattttccttgtagGATGAGGCTGGAACAGCAGCCATTAAAACTGTTGAACTCGATGCGTCTCTTGGAGGACGTGCAGTGCAACACAGGGAAATTCAAGGGCATGAATCCGACA
tattgat putative branch site (score: 3)
ttttccttgt putative PPT
tattgatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttttctctttctggttctaaagttggtttatgtatgatggttcaaagtttggaaattcttgaaccaataatctctattgatatggtgattttccttgtagGATGAGGCTGGAACAGCAGCCATTAAAACTGTTGAACTCGATGCGTCTCTTGGAGGACGTGCAGTGCAACACAGGGAAATTCAAGGGCATGAATCCGACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - ctttctg
- - - - - - - - - - -gttggtt
- - - - - - - - - - - - - - - tgtatga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -cttgaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tatggtg