Sequence
atgc intronic sequence ATGC exonic sequencegtatgctctgtgattaactctagttacatttaatactttgattatcaaatcatgcacacacaaagtactgtttatgatgtaattttaatcaaatgcaatttaatccttgttgtctggagcaaggcagtccattcctattttgttattaattttgtattttttttaaatcttgtcttgatttaagGTCCAAACTTTGACAAAAGCATGGGAGTACACATCTGCTGATCAGTTTCTGCATTGTCTACCACTACATC
Basic information
species | Glycine max |
transcript | GLYMA08G21840.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G21840.1 (Glycine max), 3'ss of exon 5
lower sequence: AT3G16170.1 (Arabidopsis thaliana), 3'ss of exon 5
gtatgctctgtgattaactctagttacatttaatactttgattatcaaatcatgcacacacaaagtactgtttatgatgtaattttaatcaaatgcaatttaatccttgttgtctggagcaaggcagtccattcctattttgttattaattttgtatttttttta-aatcttgtcttgatttaagGTCCAAACTTTGACAAAAGCATGGGAGTACACATCTGCTGATCAGTTTCTGCATTGTCTACCACTACATC------------------------------
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---------------------------------------------------------gtatatatccgacctccttatgtagcgcatgtcatgtt---tcaaatctacccaacctgcaatagaatggtctgcatgtatctaaattatgatgtaccttataagctagaagcttgtatatgttgcagGTTAGAATGCTCACTGAAGCTTGGGAGTACACATCTGCTGATCATTTTCTCCACTGCCTCCCACTACATCATGTTCATGGGCTTTTCAACGCTTTATTTG
upper sequence: GLYMA08G21840.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv09s0002g04170.t01 (Vitis vinifera), 3'ss of exon 5
gtatgctctgtgattaactctagttacatttaatactttgattatcaaatcatgcacacacaaagtactgtttatgatgtaattttaatcaaatgcaatttaat-ccttgttgtctggagcaaggcagtccattcctattttgttattaattttgtattttttttaaatcttgtcttgatttaagGTCCAAACTTTGACAAAAGCATGGGAGTACACATCTGCTGATCAGTTTCTGCATTGTCTACCACTACATC------------------------------
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-------------------------------------------------------------------------------ccacttcaaaactatgtaatttgattcccttttgactt---cactttagt---tttgtctttaacattttgatatggaattgaccttagtcttggcttaatttcagGTCCAGATCTTGACAGAAGCTTGGGGATATACATCTGCTGATCAATTTCTGCATTGTCTACCTCTGCATCATATCCATAAAACCATATTTCGGATTTTAAMapped 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|18039709|gb|BM308003.1|BM308003EST: CAGGTAAACCTAAGGGAGTTGTTCATACACACAAAAGCATCATTTCCCAG GTCCAAACTTTGACAAAAGCATGGGAGTACACATCTGCTGATCAGTTTCTG
genomic: CAGGTAAACCTAAGGGAGTTGTTCATACACACAAAAGCATCATTTCCCAGgtatgctctg ... ttgatttaagGTCCAAACTTTGACAAAAGCATGGGAGTACACATCTGCTGATCAGTTTCTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cattcctattttgttattaattttgtattttttttaaatcttgtcttgatttaagGTCCAAACTTTGACAAAAGCATGGGAGTACACATCTGCTGATCAGTTTCTGCATTGTCTACCACTACATC
tcttgtctt CT-rich tract
tattttgttattaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgctctgtgattaactctagttacatttaatactttgattatcaaatcatgcacacacaaagtactgtttatgatgtaattttaatcaaatgcaatttaatccttgttgtctggagcaaggcagtccattcctattttgttattaattttgtattttttttaaatcttgtcttgatttaagGTCCAAACTTTGACAAAAGCATGGGAGTACACATCTGCTGATCAGTTTCTGCATTGTCTACCACTACATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT