Sequence
atgc intronic sequence ATGC exonic sequenceATAGAGAATTACCAAGTTCAACTTGAGGAAATGAAGAACATGAGCAGACAGGAATACGTTGCACACTTGAGAAGgtacacattttattaattaattaaaaattttgtagggaaaagctaccaataattatatgataatcattgtgattgagtatttgtttgctttgcag
Basic information
species | Glycine max |
transcript | GLYMA04G05080.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA04G05080.1 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G028151_T01 (Zea mays), 5'ss of exon 6
ATAGAGAATTACCAAGTTCAACTTGAGGAAATGAAGAACATGAGCAGACAGGAATACGTTGCACACTTGAGAAGgtacacattttattaattaattaaaaat-tttgtagggaaaagctaccaataattatatgataatcattgtgattgagtatttgtttgctttgcag
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GTGGAGGACTACAGGGAAGAGCTGGAGGAGATGAAGAACATGACCAGACAGGAGTACGTCGCTCACCTGAGAAGgtactgatactatctatcatctgatgctgtctgttttggtcga--accgtagcttgcatgctcaccat---ggatcgccatctgttccag------
upper sequence: GLYMA04G05080.1 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G091527_T01 (Zea mays), 5'ss of exon 4
ATAGAGAATTACCAAGTTCAACTTGAGGAAATGAAGAACATGAGCAGACAGGAATACGTTGCACACTTGAGAAGg-----------tacacattttatt--aattaattaaaaattt--tgtagggaaa--------agctaccaataattatatg-----ataatcattgtgattgagtatttgtt--tgctttgcag
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GTCGAGGACTACAGGGAGCAGCTGGAGGAGATGAAGAACATGACCAGGCAGGAGTACGTCGCTCACCTGAGAAGgtactggtcctctactcctcttatctgatctgatctgatgcctgctttaggacggtctgttctggtcgcgaaccgtagcatgcatgcatgctcacatggatcgcccgtctgttgccacttgccag
upper sequence: GLYMA04G05080.1 (Glycine max), 5'ss of exon 6
lower sequence: AT4G37750.1 (Arabidopsis thaliana), 5'ss of exon 6
-ATAGAGAATTACCAAGTTCAACTTGAGGAAATGAAGAACATGAGCAGACAGGAATACGTTGCACACTTGAGAAGgtacacattttattaattaattaaaaatt--ttgtagggaaaagctaccaataattatatgataatcattgtgattgagtatttgtttgctttgcag----------------
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AAGACATGAAGAACATGACTAGAC-AAGAATATGTTGCACATTTG-AGAAGGAAGAGCAGTGGTTTCTCTAGGGGTGCTTCCATCTATAGAGGAGTCACAAGgtccttttaaattacatttatataactttatataatacatagtttaataatgtgaatattgactttgtgtgagttttttgtactag
upper sequence: GLYMA04G05080.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv18s0001g08610.t01 (Vitis vinifera), 5'ss of exon 6
ATAGAGAATTACCAAGTTCAACTTGAGGAAATGAAGAACATGAGCAGACAGGAATACGTTGCACACTTGAGAAGgtacacatttta--ttaat-taattaaaaattttgtagggaaaagctaccaataattatatgataatca---ttgtgattgagtatttgtttgctttgcag
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TTAGAAAATTACCAAGAAGAACTCGAAGAAATGAAGAACATGAGCCGCCAGGAATATGTTGCTCATCTGAGAAGgtaaagttttgagcttaatatttcttaaaattgtgt---gaacgctttccaattttaaaaggcagatctcatttgttattgggtattcag-----------Mapped 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|4307200|gb|AI444013.1|AI444013EST: GAGGAAATGAAGAACATGAGCAGACAGGAATACGTTGCACACTTGAGAAG AAAAAGCAGCGGGTTTTCTAGAGGTGCTTCAATATACAGAGGGGTCACAAG
genomic: GAGGAAATGAAGAACATGAGCAGACAGGAATACGTTGCACACTTGAGAAGgtacacattt ... tgctttgcagAAAAAGCAGCGGGTTTTCTAGAGGTGCTTCAATATACAGAGGGGTCACAAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATAGAGAATTACCAAGTTCAACTTGAGGAAATGAAGAACATGAGCAGACAGGAATACGTTGCACACTTGAGAAGgtacacattttattaattaattaaaaattttgtagggaaaagctaccaataattatatgataatcattgtgattgagtatttgtttgctttgcag
- - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - GAGCAG