Sequence
atgc intronic sequence ATGC exonic sequencegtacattctctaatcttcaataaaagcttaaattgtagattgatccgaaacttatatttgatttgattactctttttgaacagGTAGAGAAGTTTGAAAGGGATTTAAGGGAATCCAAATTTGCAGAACTCATGAACAAGCACTTTGCTGCAAGTTCAATTCCAAAAGGAATTCACTGTCTCT
Basic information
species | Arabidopsis thaliana |
transcript | AT3G01040.2 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G01040.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA18G49960.1 (Glycine max), 3'ss of exon 3
--------------------gtacattctctaatcttcaataaaagcttaaattgtagattgatccgaaacttatatttgatttgattactctttttgaacagGTAGAGAAGTTTGAAAGGGATTTAAGGGAATCCAAATTTGCAGAACTCATGAACAAGCACTTTGCTGCAAGTTCAATTCCAAAAGGAATTCACTGTCTCT
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atagtcacattgtttagactatacagta-ctgctcttgtataaatattgtgataatgg--tgattttattgatctttgtaaaaatgttgtgcttcttgggcagATGGAAAAACATGAGAGAGAAATCAGAGAGTCTAAATTTGCAGAGCTGATGAATAAACACTTTGCAGCAAGTTCTATCCCTAAAGGGATTCATTGTCTGT
upper sequence: AT3G01040.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv14s0108g01520.t01 (Vitis vinifera), 3'ss of exon 3
----gtacattctctaatc---ttcaataaaagcttaaattgtagattgatccgaaactta-------tatttgatttgattactcttttt---gaacagGTAGAGAAGTTTGAAAGGGATTTAAGGGAATCCAAATTTGCAGAACTCATGAACAAGCACTTTGCTGCAAGTTCAATTCCAAAAGGAATTCACTGTCTCT
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ccagagattttttttaaccatttcctaaaagatcttagagcctaacccaactctggttttaattaatatgtttgtttctctctctctctctctggctcagATGGAGAAGCTTGAAAGGGATATCAGGGAATCAAAGTTTGCAGAATTGATGAATAAACACTTTGCAGCAAGTGCCATTCCAAAAGGCATTCACTGTCTGTMapped 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|116476805|gb|EG519397.1|EG519397EST: AGAACAACCACTATGATGCTAAAACATTTGCCCTCGTATTTCGAGCTATG GTAGAGAAGCTTGAAAGGGATTTAAGGGAATCCAAATTTGCAGAACTCATG
genomic: AGAACAACCACTATGATGCTAAAACATTTGCCCTCGTATTTCGAGCTATGgtacattctc ... ttttgaacagGTAGAGAAGTTTGAAAGGGATTTAAGGGAATCCAAATTTGCAGAACTCATG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taaattgtagattgatccgaaacttatatttgatttgattactctttttgaacagGTAGAGAAGTTTGAAAGGGATTTAAGGGAATCCAAATTTGCAGAACTCATGAACAAGCACTTTGCTGCAAGTTCAATTCCAAAAGGAATTCACTGTCTCT
ttactcttttt CT-rich tract
aaacttatatttgatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacattctctaatcttcaataaaagcttaaattgtagattgatccgaaacttatatttgatttgattactctttttgaacagGTAGAGAAGTTTGAAAGGGATTTAAGGGAATCCAAATTTGCAGAACTCATGAACAAGCACTTTGCTGCAAGTTCAATTCCAAAAGGAATTCACTGTCTCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA