Sequence
atgc intronic sequence ATGC exonic sequencegtaattagttatttttggtagccctctgattgagtaataactgataacaagtttaaataatgcttggtgatgattgtttcatcatctgatttttgtggaccacaacagCTCTTTCCAGATCTCAAAAAGATAGTATTCTTGGATGATGATGTAGTAGTACAACATGACATATCTTCTTTGTGGGAACTAGATCTTAATGGCAAAGTCA
Basic information
species | Glycine max |
transcript | GLYMA08G42280.2 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G42280.2 (Glycine max), 3'ss of exon 4
lower sequence: AT3G58790.1 (Arabidopsis thaliana), 3'ss of exon 4
gtaattagttatttttggtagccctctgattgagtaataactgataacaagtttaaataatgcttggtgatgattgtttcatcatctgatttttgt-ggaccacaacagCTCTTTCCAGATCTCAAAAAGATAGTATTCTTGGATGATGATGTAGTAGTACAACATGACATATCTTCTTTGTGGGAACTAGATCTTAATGGCAAAGTCA
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------------gtaaagtttctctcctctcaactcttctctga------gcttaaaaaccattccat--ttatcatttcga-atcttctttttgttggaccgcg-cagCTTTTTCCAGATCTCAACAAGATAGTGTTGTTGGATGATGATGTAGTAGTACAGAGCGATCTTTCGTCTTTATGGGAAACGGATCTCAACGGTAAAGTTG
upper sequence: GLYMA08G42280.2 (Glycine max), 3'ss of exon 4
lower sequence: Vv12s0142g00340.t01 (Vitis vinifera), 3'ss of exon 4
gtaatta-----gttatttttggtagccctct------gattgagtaat--aactgataacaagtttaaataatgcttggtgatgattgtttcatcatctgatttttgtggaccacaacagCTCTTTCCAGATCTCAAAAAGATAGTATTCTTGGATGATGATGTAGTAGTACAACATGACATATCTTCTTTGTGGGAACTAGATCTTAATGGCAAAGTCA
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gttaatacccctgactttcctaataaatttctcaactggattgattaattgggcggatattgttgcctatgcatctttagtgaagattgatttattatctgacttttgtgggctatg-cagCTGTTTCCAGATCTTGACAAGATAGTGTTCTTGGATGATGATATTGTAGTACAACATGACTTATCATCTCTGTGGGAATTAGATCTCAATGGAAAAGTTGMapped 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|26047898|gb|CA784540.1|CA784540EST: GGCCCAGCAGCCTATCCTTGATGAATCAACTCCGCATTTATTTGCCCGAG CTCTTTCCAGATCTCAAAAAGATAGTATTCTTGGATGATGATGTAGTAGTA
genomic: GGCCCAGCAGCCTATCCTTGATGAATCAACTCCGCATTTATTTGCCCGAGgtaattagtt ... accacaacagCTCTTTCCAGATCTCAAAAAGATAGTATTCTTGGATGATGATGTAGTAGTA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taaataatgcttggtgatgattgtttcatcatctgatttttgtggaccacaacagCTCTTTCCAGATCTCAAAAAGATAGTATTCTTGGATGATGATGTAGTAGTACAACATGACATATCTTCTTTGTGGGAACTAGATCTTAATGGCAAAGTCA
atctgat putative branch site (score: 4)
tgattttt 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 |
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaattagttatttttggtagccctctgattgagtaataactgataacaagtttaaataatgcttggtgatgattgtttcatcatctgatttttgtggaccacaacagCTCTTTCCAGATCTCAAAAAGATAGTATTCTTGGATGATGATGTAGTAGTACAACATGACATATCTTCTTTGTGGGAACTAGATCTTAATGGCAAAGTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG