Sequence
atgc intronic sequence ATGC exonic sequence...tgcttcataataagtaataagcattgtagatctttctaccaatcttcatatctgtgtatatattttccaaatttctgatcattgtgatctgcctgttcagGAATGCTTATAACATGGTGTTACAAAAATTTGGGGAGAAACTTTACACAGGACTTGTGACGACCATGACTTCTCATCTAAAAGAAATTTCTCAATCAATT
Basic information
species | Glycine max |
transcript | GLYMA13G05310.2 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G05310.2 (Glycine max), 3'ss of exon 2
lower sequence: PP1S31_336V6.1 (Physcomitrella patens), 3'ss of exon 2
tgcttcataataagtaataagcattgtagatctttctaccaatcttcatatctgtgtatatattttccaaatttctgatcattgtgatct--gcctgttcagGAATGCTTATAACATGGTGTTACAAAAATTTGGGGAGAAACTTTACACAGGACTTGTGACGACCATGACTTCTCATCTAAAAGAAATTTCTCAATCAATT
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catttggtgatgatctatgaa-attaattgtatatattcgatacttcacgtgacta-atttagtatcccatcaatcatgaattgggatttcaaaatgttcagGAATGCGTACAACATGGTGCTCCACAAGTATGGAGAGAAACTCTACTCAGGAGTTGTGACGACAATGACGCAGCATTTGCGGGAGATAGCTCGAATTGTTMapped 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|6566393|gb|AW234060.1|AW234060EST: GAGATATACAATCACAACGCTAGTGGCCTTAGCTTTGAAGAGCTTTACAG GAATGCTTATAACATGGTGTTACAAAAATTTGGGGAGAAACTTTACACAGG
genomic: GAGATATACAATCACAACGCTAGTGGCCTTAGCTTTGAAGAGCTTTACAGgttgattcat ... gcctgttcagGAATGCTTATAACATGGTGTTACAAAAATTTGGGGAGAAACTTTACACAGG
EST:
gi|15663851|gb|BI701222.1|BI701222EST: GAGATATACAATCACAACGCTAGTGGCCTTAGCTTTGAAGAGCTTTACAG GAATGCTTATAACATGGTGTTACAAAAATTTGGGGAGAAACTTTACACAGG
genomic: GAGATATACAATCACAACGCTAGTGGCCTTAGCTTTGAAGAGCTTTACAGgttgattcat ... gcctgttcagGAATGCTTATAACATGGTGTTACAAAAATTTGGGGAGAAACTTTACACAGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcatatctgtgtatatattttccaaatttctgatcattgtgatctgcctgttcagGAATGCTTATAACATGGTGTTACAAAAATTTGGGGAGAAACTTTACACAGGACTTGTGACGACCATGACTTCTCATCTAAAAGAAATTTCTCAATCAATT
ttctgat putative branch site (score: 3)
tctgcct putative PPT
tatatattttccaaat 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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tgcttcataataagtaataagcattgtagatctttctaccaatcttcatatctgtgtatatattttccaaatttctgatcattgtgatctgcctgttcagGAATGCTTATAACATGGTGTTACAAAAATTTGGGGAGAAACTTTACACAGGACTTGTGACGACCATGACTTCTCATCTAAAAGAAATTTCTCAATCAATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA