Sequence
atgc intronic sequence ATGC exonic sequence...ctaataaaatacttaagttcctttttctcagttttgattgcctttcatgtaaacttccttctttgttctctcgttgatttgtttcaaaatttaaaaacagGGTGGCGTCTTGACTATTTCCTTGTCTCAGAATCCATTGCTGACAAAGTTCACGATTCATACATTCTTCCTGATGTTACCGGTAGTGATCATTGTCCTAT
Basic information
species | Glycine max |
transcript | GLYMA02G34700.1 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G34700.1 (Glycine max), 3'ss of exon 11
lower sequence: LOC_Os01g58690.1 (Oryza sativa), 3'ss of exon 7
--ctaataaaatacttaa-----gttcctttttctcagttttgattgcctttcatgtaaacttccttctttgttctctcgttgatttgtttcaaaatttaaaaacagGGTGGCGTCTTGACTATTTCCTTGTCTCAGAATCCATTGCTGACAAAGTTCACGATTCATACATTCTTCCTGATGTTACCGGTAGTGATCATTGTCCTAT
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ttcttctagaccttttagccaatggaaccatttcttttttttcctcccctttgaaaatataagcttccctggttctgatgttt-tttgcttca---tctaa---cagGTTGGCGATTAGATTACTTTCTTGCGTCGGAATCTATTACCGACAAGGTTCATGATTCATACATTCTTCCTGATGTATCATTCAGCGACCACAGTCCAAT
upper sequence: GLYMA02G34700.1 (Glycine max), 3'ss of exon 11
lower sequence: LOC_Os01g58680.1 (Oryza sativa), 3'ss of exon 11
-ctaataaaatacttaagttcctttttctcagttttgattgcctttcatgtaa-acttccttctttgttctctcgttgatttgtttcaaaatttaaaaacagGGTGGCGTCTTGACTATTTCCTTGTCTCAGAATCCATTGCTGACAAAGTTCACGATTCATACATTCTTCCTGATGTTACCGGTAGTGATCATTGTCCTAT
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catatgtctgcacactggattatgcacactagttt-gtttccttgtaacataagagcatgctaattatttgaccgt-gtcgcattttgtcattgtttggcagGTTGGCGTCTGGATTATTTTCTTGTGTCTGAATCCATTGCAGAAAGAGTCCATGATTCATACATTATTCCAGACATATCTGCCAGTGATCACAGCCCGCTMapped 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|18041187|gb|BM309481.1|BM309481EST: TGGATATACATATTGGGGTTACCGTCATGGTGGACGCAAGTTTAACAGAG GGTGGCGTCTTGACTATTTCCTTGTCTCAGAATCCATTGCTGACAAAGTTC
genomic: TGGATATACATATTGGGGTTACCGTCATGGTGGACGCAAGTTTAACAGAGgtatttctag ... ttaaaaacagGGTGGCGTCTTGACTATTTCCTTGTCTCAGAATCCATTGCTGACAAAGTTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catgtaaacttccttctttgttctctcgttgatttgtttcaaaatttaaaaacagGGTGGCGTCTTGACTATTTCCTTGTCTCAGAATCCATTGCTGACAAAGTTCACGATTCATACATTCTTCCTGATGTTACCGGTAGTGATCATTGTCCTAT
cgttgat putative branch site (score: 5)
ttgatttgtttcaaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctaataaaatacttaagttcctttttctcagttttgattgcctttcatgtaaacttccttctttgttctctcgttgatttgtttcaaaatttaaaaacagGGTGGCGTCTTGACTATTTCCTTGTCTCAGAATCCATTGCTGACAAAGTTCACGATTCATACATTCTTCCTGATGTTACCGGTAGTGATCATTGTCCTAT
- aataaaa
- - - - - - - - gttcctt
- - - - - - - - - - - - - - - - - tgattgc
- - - - - - - - - - - - - - - - - - - - - - -catgtaa