Sequence
atgc intronic sequence ATGC exonic sequence...tcttttgacatcattgaaaaattatgacaaatcagatggaagcctataaggtgctttctttattattaatttcttctattttcctctttgtgtttcctagAGACTTGAAAGCAGAGAATCTTTTATTAGGTTCAGATGGCTTATGGAAGTTATGTGATTTTGGAAGCACTTCCACCAATCACAAACGTTTTGAAAAGCCA
Basic information
species | Glycine max |
transcript | GLYMA08G15920.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G15920.1 (Glycine max), 3'ss of exon 3
lower sequence: AT2G32850.2 (Arabidopsis thaliana), 3'ss of exon 2
tcttttgacatcattgaaaaattatgacaaatcagatggaagcctataaggtgctttctttattattaatttcttctattttcctctttgtgtttcctagAGACTTGAAAGCAGAGAATCTTTTATTAGGTTCAGATGGCTTATGGAAGTTATGTGATTTTGGAAGCACTTCCACCAATCACAAACGTTTTGAAAAGCCA
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---gtatacat-gttgtattattagatttcgtttcgtttttacat-tagcaagcgatgtgaattgatactgtattg-gtgttgctaatcgtgac----agAGACTTGAAGGCTGAGAATCTTCTATTGAGCTCAGATGGACAATGGAAATTGTGTGATTTTGGAAGCGTTTCGACAAATCACAAGATTTTTGAAAGAGCA
upper sequence: GLYMA08G15920.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv13s0156g00640.t01 (Vitis vinifera), 3'ss of exon 3
tcttttgacatcattgaaaaattatgacaaatcagatggaagcctataaggtgctttcttta---ttatt-aatttcttctattttcctctttgtgtttcctagAGACTTGAAAGCAGAGAATCTTTTATTAGGTTCAGATGGCTTATGGAAGTTATGTGATTTTGGAAGCACTTCCACCAATCACAAACGTTTTGAAAAGCCA
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----aaaacacaatagattttttcctatgtattaataaaagatatgcacagaaatttgtttcgacttatttgacattctccattttcttcattgtattcttcagAGACTTAAAAGCTGAGAATCTTCTATTGGGCCCTGATGGATTATGGAAGTTGTGTGATTTTGGAAGCACCTCCACCAATCATAAGCGCTTTGAGAAGCCTMapped 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|209717258|gb|BW659000.1|BW659000EST: TGTAATGCAGTTCTTGCCATGCACTGCCAGTCCCCACCTATTGCACACCG AGACTTGAAAGCAGAGAATCTTTTATTAGGTTCAGATGGCTTATGGAAGTT
genomic: TGTAATGCAGTTCTTGCCATGCACTGCCAGTCCCCACCTATTGCACACCGgtaacaacac ... tgtttcctagAGACTTGAAAGCAGAGAATCTTTTATTAGGTTCAGATGGCTTATGGAAGTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ataaggtgctttctttattattaatttcttctattttcctctttgtgtttcctagAGACTTGAAAGCAGAGAATCTTTTATTAGGTTCAGATGGCTTATGGAAGTTATGTGATTTTGGAAGCACTTCCACCAATCACAAACGTTTTGAAAAGCCA
tattaat putative branch site (score: 2)
tttcttctattttcct CT-rich tract
tttctttattattaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcttttgacatcattgaaaaattatgacaaatcagatggaagcctataaggtgctttctttattattaatttcttctattttcctctttgtgtttcctagAGACTTGAAAGCAGAGAATCTTTTATTAGGTTCAGATGGCTTATGGAAGTTATGTGATTTTGGAAGCACTTCCACCAATCACAAACGTTTTGAAAAGCCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - -tgacatc
- - - - - - - -gaaaaat