Sequence
atgc intronic sequence ATGC exonic sequence...ctccatgaaacatttcattgtaacaggtcatcctatgtttacttctggacttatttgtttacttaactacaaagaacctgacttatacgattgtttgcagGGCGGCTGGTTTGGCAGTATGATCTAACAGAAAAGCACATAGCTGAATAGTGCTATGGCAGAAGCTCTGATACTAGTATTGCTTCAAAAAATTGCAACCA
Basic information
species | Oryza sativa |
transcript | LOC_Os12g31620.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
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|88390282|gb|CI605735.1|CI605735EST: TATCTTCCACCAAAGCTCTCCATGAGATCCCAAAAGGTGACCTCCCTAAG GGCGGCTGGTTTGGCAGTATGATCTAACAGAAAAGCACATAGCTGAATAGT
genomic: TATCTTCCACCAAAGCTCTCCATGAGATCCCAAAAGGTGACCTCCCTAAGgtacgttgct ... ttgtttgcagGGCGGCTGGTTTGGCAGTATGATCTAACAGAAAAGCACATAGCTGAATAGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tggacttatttgtttacttaactacaaagaacctgacttatacgattgtttgcagGGCGGCTGGTTTGGCAGTATGATCTAACAGAAAAGCACATAGCTGAATAGTGCTATGGCAGAAGCTCTGATACTAGTATTGCTTCAAAAAATTGCAACCA
acctgac putative branch site (score: 3)
ttatttgtttacttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctccatgaaacatttcattgtaacaggtcatcctatgtttacttctggacttatttgtttacttaactacaaagaacctgacttatacgattgtttgcagGGCGGCTGGTTTGGCAGTATGATCTAACAGAAAAGCACATAGCTGAATAGTGCTATGGCAGAAGCTCTGATACTAGTATTGCTTCAAAAAATTGCAACCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
ctccatg
- - - - - - tttcatt
- - - - - - - - - - - - - - - - ctatgtt
- - - - - - - - - - - - - - - - - - - - -cttctgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctacaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cctgact