Sequence
atgc intronic sequence ATGC exonic sequenceAGCTTGATGTATCAACTATGCAAAGGTATGGCATTCTGCCATGGTCACGGGATATTGCACAGgtgaattgttctctggctttcccttgttttcaacttctaagtgagaatgattttagataataacttggaagagagatttcttcttcttactatttctccttgtttcaaaacag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G76540.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G76540.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA09G08250.2 (Glycine max), 5'ss of exon 2
AGCTTGATGTATCAACTATGCAAAGGTATGGCATTCTGCCATGGTCACGGGATATTGCACAGgtg--aattgttctctggctttcccttgttttcaacttctaagtgagaatgattttagataataacttggaagagagatttcttcttcttactatttctccttgtttcaaaacag
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AGCTTGATGTATCAGCTTTGCAAGGGGATTGCTTTCTGCCACGGTCATGGGATCTTGCACAGgtagtacttaacccttaacccttgttccctttcatttccctcactc--atgtatgtaactatgtatgtatgtacatattatgaaataatttgaatttttatttatttattaag--
upper sequence: AT1G76540.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv18s0122g00550.t01 (Vitis vinifera), 5'ss of exon 3
AGCTTGATGTATCAACTATGCAAAGGTATGGCATTCTGCCATGGTCACGGGATATTGCACAGgtgaattgttctctggctttcccttgttttcaacttctaagtgagaatgattttagataataacttggaagagagatttcttcttcttactatttctccttgtttcaaaacag
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AGCTTGATGTACCAATTATGCAAAGGTGTTGCTTTCTGCCATGGTCATGGGGTATTGCACAGgtga-caattctctttctccctcgaatctccatcttctttctcaaa-------tgggtcctttctctgaa-actgttttaaactcccag------------------------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|124880020|gb|EH958922.1|EH958922EST: ATATTGCACAG AGATCTCAAGCCTCACAATCTCTTGATGGATCCCAAGACAATGAGGCTCAA
genomic: ATATTGCACAGgtgaattgtt ... ttcaaaacagAGATCTCAAGCCTCACAATCTCTTGATGGATCCCAAGACAATGAGGCTCAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGCTTGATGTATCAACTATGCAAAGGTATGGCATTCTGCCATGGTCACGGGATATTGCACAGgtgaattgttctctggctttcccttgttttcaacttctaagtgagaatgattttagataataacttggaagagagatttcttcttcttactatttctccttgtttcaaaacag
- - - - - - - - - GCAAAG