Sequence
atgc intronic sequence ATGC exonic sequence...tgatctttcatgttgcaacttgggttttgtaatagattctatagcgaattgagaataaaggaggaggctttatctggtttctatgattgtttctttgtagAATGAGAAGCGAGAAAGAGTGGTGAAGGTAAGTCGTGATATCACAATGAACAGCAAAAAAGTTATCTTTCAGGTTCACAG
Basic information
species | Arabidopsis thaliana |
transcript | AT2G03780.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G03780.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: LOC_Os01g16100.1 (Oryza sativa), 3'ss of exon 2
---tgatctttcatgttgcaacttgggttttgtaatag-attctatagcgaattgagaataaaggaggaggctttatctggtttctatgattgtttctttgtagAATGAGAAGCGAGAAAGAGTGGTGAAGGTAAGTCGTGATATCACAATGAACAGCAAAAAAGTTATCTTTCAGGTTCACAG
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ttccccttgtacatgctgaaagc-agttatggtagtagcaggctgtatctttcttaagtta---gcaatatttttatattatctcatcagttttccatatgtagAATGATAAAAGGGAAAGGCTTGTGAAAGCAAGTCGGGATTTGACAATGAACAGCAAAAAGGCCATCTTTCAGGTTCACAG
upper sequence: AT2G03780.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GRMZM2G128080_T01 (Zea mays), 3'ss of exon 1
tgatctttcatgttgcaacttgggttttgtaatagattctata---gcgaattgagaataaaggaggaggctttatctggtttctatgattgtttctttgtagAATGAGAAGCGAGAAAGAGTGGTGAAGGTAAGTCGTGATATCACAATGAACAGCAAAAAAGTTATCTTTCAGGTTCACAG
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ctttccttctt-ttacaatccgaaatcattatcacatagtatgttcgctattattgtgtaaattatcaatgtttgtaatattttc-tctctgtttact-gtagAATGACAAGAGAGAAAGGCTTGTGAAAGCTAGTCGGGATATTACAATGAACAGCAAAAAGGTCATCTTTCAGGTCCACAGMapped 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|19877137|gb|AU237968.1|AU237968EST: CCTCAATGAAAGATGCTTTCTCTACTTACGCTGATTATCTCAATAACTTC AATGAGAAGCGAGAAAGAGTGGTGAAGGTAAGTCGTGATATCACAATGAAC
genomic: CCTCAATGAAAGATGCTTTCTCTACTTACGCTGATTATCTCAATAACTTCgtaagtgttt ... ttctttgtagAATGAGAAGCGAGAAAGAGTGGTGAAGGTAAGTCGTGATATCACAATGAAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaattgagaataaaggaggaggctttatctggtttctatgattgtttctttgtagAATGAGAAGCGAGAAAGAGTGGTGAAGGTAAGTCGTGATATCACAATGAACAGCAAAAAAGTTATCTTTCAGGTTCACAG
ttgtttcttt CT-rich tract
agaataaa 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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgatctttcatgttgcaacttgggttttgtaatagattctatagcgaattgagaataaaggaggaggctttatctggtttctatgattgtttctttgtagAATGAGAAGCGAGAAAGAGTGGTGAAGGTAAGTCGTGATATCACAATGAACAGCAAAAAAGTTATCTTTCAGGTTCACAG
- - - - - - - - - - - ggttttg
- - - - - - - - - - - - - - - - - - - - - - - - - - gaataaa