Sequence
atgc intronic sequence ATGC exonic sequencegtaagttgctatagtttaatgtattatgatcatatttagaataagcttttaagtggttataggcatagaatgtattaggggatgtgattgaagcaacatgatttcttagttcattgcttttgtatctaatattttacatgttttcttgttttgtttggtaagTGCTGGTTCACTTAAGACCTTGAAGGTGCCAAGAAGTGGTCTGACTAATTCGGGTGTGGTAAACGTAGCTGAAAAGCTCTCGTCTCTCACTTTCTTGGAT
Basic information
species | Arabidopsis thaliana |
transcript | AT4G08980.5 |
intron # | 2 |
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|163989115|gb|ES141450.1|ES141450EST: TCCGTTACTGGCCTTCGAAATGACTCTATCTTCTCCTTCATTGCACAACA TGCTGGTTCACTTAAGACCT
genomic: TCCGTTACTGGCCTTCGAAATGACTCTATCTTCTCCTTCATTGCACAACAgtaagttgct ... gtttggtaagTGCTGGTTCACTTAAGACCT
EST:
gi|125306699|gb|EL320784.1|EL320784EST: TCCGTTACTGGCCTTCGAAATGACTCTATCTTCTCCTTCATTGCACAACA TGCTGGTTCACTTAAGACC
genomic: TCCGTTACTGGCCTTCGAAATGACTCTATCTTCTCCTTCATTGCACAACAgtaagttgct ... gtttggtaagTGCTGGTTCACTTAAGACC
EST:
gi|116458064|gb|EG500656.1|EG500656EST: TCCGTTACTGGCCTTCGAAATGACTCTATCTTCTCCTTCATTGCACAACA TGCTGGTTCACTTAAGACCTTGAAGGTGCCAAGAAGTGGTCTGACTAATTC
genomic: TCCGTTACTGGCCTTCGAAATGACTCTATCTTCTCCTTCATTGCACAACAgtaagttgct ... gtttggtaagTGCTGGTTCACTTAAGACCTTGAAGGTGCCAAGAAGTGGTCTGACTAATTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agttcattgcttttgtatctaatattttacatgttttcttgttttgtttggtaagTGCTGGTTCACTTAAGACCTTGAAGGTGCCAAGAAGTGGTCTGACTAATTCGGGTGTGGTAAACGTAGCTGAAAAGCTCTCGTCTCTCACTTTCTTGGAT
atctaat putative branch site (score: 3)
ttttcttgttttgttt putative PPT
ttttgtatctaatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagttgctatagtttaatgtattatgatcatatttagaataagcttttaagtggttataggcatagaatgtattaggggatgtgattgaagcaacatgatttcttagttcattgcttttgtatctaatattttacatgttttcttgttttgtttggtaagTGCTGGTTCACTTAAGACCTTGAAGGTGCCAAGAAGTGGTCTGACTAATTCGGGTGTGGTAAACGTAGCTGAAAAGCTCTCGTCTCTCACTTTCTTGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA