Sequence
atgc intronic sequence ATGC exonic sequence...tttagttttagctttgctgcaaggtatgatctttaaatggttgcctaatcctcctcatttggattataattttacactctgacacaaccttgtaaaacagGATGATAACAGGTATAATGCAAGCAGAGGTGCACACTTAAACCTCAAACGTGCAGAGAAAGCTCGGATATTGGTCAACAAAATTCCAG
Basic information
species | Glycine max |
transcript | GLYMA02G46450.2 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G46450.3 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os06g20370.1 (Oryza sativa), 3'ss of exon 7
-----------tttagttttagctt--------tgctgcaaggtatgatctttaaatggttgcctaatcctcctcatttggattataattttacactctgacacaaccttgtaaa------acagGATGATAACAGGTATAATGCAAGCAGAGGTGCACACTTAAACCTCAAACGTGCAGAGAAAGCTCGGATATTGGTCAACAAAATTCCAG
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gtaagatgatattttgttgtagcaaatcaaaagtattacatcttttattctttcatgatttaagtgatattaccaaattattctgtttttaaatagcctatcatgaattgaaaatccttctgcagGATGACAACAGATATAACTCAAGCCGAGGTGCCCACCTGAATCTCAAACGTGCTGAAAAGGCTCGGATTCTTGTCAACAAGATTCCAG
upper sequence: GLYMA02G46450.3 (Glycine max), 3'ss of exon 7
lower sequence: AT4G26760.1 (Arabidopsis thaliana), 3'ss of exon 7
----tttagttttagctttgctgcaaggtatgatctttaaatggttgcctaatcctcctcatttggattataattttacactctgacacaaccttgtaaaacagGATGATAACAGGTATAATGCAAGCAGAGGTGCACACTTAAACCTCAAACGTGCAGAGAAAGCTCGGATATTGGTCAACAAAATTCCAG
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gtatgctaacattggctatgttaataaacacattacttattaagc------atagagttcaattg-atgattcttttgggtttttgt----tctggaaaaacagGATCAGAACAGGTATAGTGCAAGCCGAGGTGCGCATTTGAATCTCAAGAGAGCTGAGAAAGCTCGGATTCTGGTCAGCAAGATTACTG
upper sequence: GLYMA02G46450.3 (Glycine max), 3'ss of exon 7
lower sequence: AT5G55230.2 (Arabidopsis thaliana), 3'ss of exon 6
------tttagttttagctttgctgcaaggtatgatctttaaatggttgcctaatcctcctcatttggattataattttacactctgacacaaccttgtaaaacagGATGATAACAGGTATAATGCAAGCAGAGGTGCACACTTAAACCTCAAACGTGCAGAGAAAGCTCGGATATTGGTCAACAAAATTCCAG
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gtaatgcataatttct-ctcagtcactcactatgat----acatcataagacattaactttaaattggatcttgagctttttcatggttttgttttctgagagcagGATCAGAACAGGTACAGCGCAAGCAGAGGTGCACACTTGAATCTCAAGAGAGCTGAGAAAGCTCGGATTCTGGTTAGCAAGATTCCTGMapped 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|192323992|gb|FK018683.1|FK018683EST: TAGCAACAGCAAAAGAAGAAGCTTTAAGCCGAAAAGATATATTGGACAAG GTTGATAACAGGTATAATGCAAGCAGAGGTGCACACTTAAACCTCAAACGT
genomic: TAGCAACAGCAAAAGAAGAAGCTTTAAGCCGAAAAGATATATTGGACAAGgttgagaaat ... tgtaaaacagGATGATAACAGGTATAATGCAAGCAGAGGTGCACACTTAAACCTCAAACGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taatcctcctcatttggattataattttacactctgacacaaccttgtaaaacagGATGATAACAGGTATAATGCAAGCAGAGGTGCACACTTAAACCTCAAACGTGCAGAGAAAGCTCGGATATTGGTCAACAAAATTCCAG
ctctgac putative branch site (score: 3)
atttggattataattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttagttttagctttgctgcaaggtatgatctttaaatggttgcctaatcctcctcatttggattataattttacactctgacacaaccttgtaaaacagGATGATAACAGGTATAATGCAAGCAGAGGTGCACACTTAAACCTCAAACGTGCAGAGAAAGCTCGGATATTGGTCAACAAAATTCCAG
- - - - - - - - -tgcaagg
- - - - - - - - - - - - - - - - - - -tggttgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tacactc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cacaacc