Sequence
atgc intronic sequence ATGC exonic sequenceTTATCAGCCAAAGACAGATATAATCAAAGCTCTTGCTATTCTTGCAGCAGCTCTTACAGGAACAGCTGCCATTAACCATTCCTGGGTCGCTGCTAATCAGgtgtgattctttgtttttatgttctttggtttcaactcaaaatgcagaattttgattaacaattatctatggacaatgttatgttacag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G19490.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G19490.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM2G053927_T01 (Zea mays), 5'ss of exon 2
TTATCAGCCAAAGACAGATATAATCAAAGCTCTTGCTATTCTTGCAGCAGCTCTTACAGGAACAGCTGCCATTAACCATTCCTGGGTCGCTGCTAATCAGgt---gtgattctttgtttttat------gttctttggtt--tcaactcaaa-atgcag---aattttgattaacaattatctatggacaatgttatgttacag------------------------------
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CTACAAACCAAAAAATGACCTTCTAAAAGCTTTAACTATCATTGGCACAGCCTTGACTGGAGCAGCCGCAATAAACCATTCCTGGGTTGCTGCTAATCAGgtcagctggtttgttgcatctgtccaaaagttcccttatttatcattttaactatgtagtctggctctttctgtttgttatgcacacaacaaggatcattatagcaagcatcattcaaatacttccttctgcag
upper sequence: AT3G19490.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv03s0180g00120.t01 (Vitis vinifera), 5'ss of exon 2
TTATCAGCCAAAGACAGATATAATCAAAGCTCTTGCTATTCTTGCAGCAGCTCTTACAGGAACAGCTGCCATTAACCATTCCTGGGTCGCTGCTAATCAGgtgtgattctttgtttttat---gttctttgg-----tttcaactcaaaatgcagaattttgattaacaattatc-tatggacaatgttatgttacag------------------------
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ATACCAGCCAAAGACCGATTTGCTGAAAGCTCTTGCAATTCTTGCAGCAGCTACAACAGGGGCAGTTGCAATTAATCAGTCGTGGGTTGCTGCTAATCAGgtccattttcatcttgttgtctgattcttttgatggttttcttgtttgcttacatgcctttgttaaaaaaagttcatacgaataaaggggcattacaaaacaaatcagttctcatgatatagMapped 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|164008858|gb|ES170959.1|ES170959EST: CCTGGGTCGCTGCTAATCAG GATGTTGCTATGGCATTGTTTGTTTGGAATAGGATACGCTGGCATCATCTT
genomic: CCTGGGTCGCTGCTAATCAGgtgtgattct ... tatgttacagGATGTTGCTATGGCATTG-TTGTTTGGAATAGGATACGCTGGCATCATCTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTATCAGCCAAAGACAGATATAATCAAAGCTCTTGCTATTCTTGCAGCAGCTCTTACAGGAACAGCTGCCATTAACCATTCCTGGGTCGCTGCTAATCAGgtgtgattctttgtttttatgttctttggtttcaactcaaaatgcagaattttgattaacaattatctatggacaatgttatgttacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT