Sequence
atgc intronic sequence ATGC exonic sequenceGGGAAGGTCTTCGTGGTACATGGAGGTCTTTTCAGTGTTGACGGCGTGAAACTCTCAGACATCAGAGCCATTGACAGATTCTGTGAGCCACCAGAGGAAGgtatgtttcatcatatacatcttctgtaagattacttctcatgtaattgtgttctgtttaatcatcttatcttgctaatggtttatgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT2G42810.1 |
intron # | 9 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G42810.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA08G42380.1 (Glycine max), 5'ss of exon 9
GGGAAGGTCTTCGTGGTACATGGAGGTCTTTTCAGTGTTGACGGCGTGAAACTCTCAGACATCAGAGCCATTGACAGATTCTGTGAGCCACCAGAGGAAGgtatgtttcatcatatacatcttctgtaagattacttctcatgtaattgtgttctgtttaatcatctta----tcttgctaatggtttatgcag----------------------------------------------------------------
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GAGAAAGTTTTCGTAGTTCATGGAGGTCTTTTTAGTGTTGATGGGGTCAAACTCTCTGACATCCGATCAATTAATAGATTTTGTGAGCCTCCTGAAGAAGgttagatacatccttttttgttgtctctaattgatctcccagttaaccacacatacctaaatccctctaaactttccattcttgcactacatagactcacctttggctttttcaccctcagtattgtagttttatgtacctatgtttggtatgtgtag
upper sequence: AT2G42810.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: Vv12s0142g00720.t01 (Vitis vinifera), 5'ss of exon 3
GGGAAGGTCTTCGTGGTACATGGAGGTCTTTTCAGTGTTGACGGCGTGAAACTCTCAGACATCAGAGCCATTGACAGATTCTGTGAGCCACCAGAGGAAGgtatgtt-----------tcatcatatacatcttctgtaagattacttctcatgtaattgtgttctgtttaatcatcttatcttgctaatggtttatgcag-
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GAAAAGATCTTTGTAGTTCATGGAGGTCTATTCAGTGTTGATGGAGTGAAGCTCTCTGACATTAGAGCAATTGACCGGTTTTGTGAGCCTCCTGAGGAAGgtaagctagatatgctgttcattctgtacttttttcctcaagcttctattaatatcaagatgcattctcttccaatcctacc--actattggtaaatagttaMapped 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|124990815|gb|EL063084.1|EL063084EST: ACTCTCAGACATCAGAGCCATTGACAGATTCTGTGAGCCACCAGAGGAAG GACTAATGTGTGAACTATTGTGG
genomic: ACTCTCAGACATCAGAGCCATTGACAGATTCTGTGAGCCACCAGAGGAAGgtatgtttca ... gtttatgcagGACTAATGTGTGAACTATTGTGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGGAAGGTCTTCGTGGTACATGGAGGTCTTTTCAGTGTTGACGGCGTGAAACTCTCAGACATCAGAGCCATTGACAGATTCTGTGAGCCACCAGAGGAAGgtatgtttcatcatatacatcttctgtaagattacttctcatgtaattgtgttctgtttaatcatcttatcttgctaatggtttatgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA