Sequence
atgc intronic sequence ATGC exonic sequencegtaaactaatcacttcaacattccccacatcattcgcaatattcctatttccaagatagaaagatcccaaatttcaaagaacatctacgatttaaaaccgtttctcttgttccacaatgaagCCAACTCCATTGCATCTGACTGTGAAAGAGTATGTCACACCTGAGAAGTTTGATTTCTGGAAAACATACGGAGAATCAATAGGATTTCGTTATGTTGCAA
Basic information
species | Arabidopsis thaliana |
transcript | AT5G08415.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G08415.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA20G24430.1 (Glycine max), 3'ss of exon 5
gtaaactaatcacttcaacattccccacatcattcgcaatattcctatttccaagatagaaagatcccaaatttcaaagaacatctacgatttaaaaccgtttctcttg--ttccacaatgaagCCAACTCCATTGCATCTGACTGTGAAAGAGTATGTCACACCTGAGAAGTTTGATTTCTGGAAAACATACGGAGAATCAATAGGATTTCGTTATGTTGCAA
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----------------------gtttgctcagctgataatagtcataata--gaccttgcaggtctttattattgatcgtttacttgtggcttattgttaattcgaaagattttattgttgcagCCAACTCCCTTGCACTTAACTGTCAAAGAGTATGTTACTCCTGAGAAGTTTGATTTCTGGAAAGAATATGGGGAATCTATTGGTTTTCGTTACGTAGCTA
upper sequence: AT5G08415.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA10G42600.1 (Glycine max), 3'ss of exon 7
gtaaactaatcacttcaacattccccacatcattcgcaatattcctatttccaagatagaaagatcccaaatttcaaagaacatctacgatttaaaaccgtttctcttgttccacaatgaagCCAACTCCATTGCATCTGACTGTGAAAGAGTATGTCACACCTGAGAAGTTTGATTTCTGGAAAACATACGGAGAATCAATAGGATTTCGTTATGTTGCAA
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gttggctaagcgga-caatagttataatacaccttgcag-atctttattatt----------gatttttaactt-gtggcttattgttaattcaaaa--gattttattgttgca-------gCCAACTCCCTTGCACTTAACTGTCAAAGAGTATGTTACTCCTGAGAAGTTTGCTTTCTGGAAAGAATACGGGGAATCTATTGGTTTTTGTTATGTAGCTA
upper sequence: AT5G08415.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv10s0071g01020.t01 (Vitis vinifera), 3'ss of exon 5
gtaaactaatcacttcaacattccccacatcattcgcaatattcctatttccaagatagaaagatcccaaatttcaaagaacatctacgatttaaaaccgtttctcttgttccacaatgaagCCAACTCCATTGCATCTGACTGTGAAAGAGTATGTCACACCTGAGAAGTTTGATTTCTGGAAAACATACGGAGAATCAATAGGATTTCGTTATGTTGCAA
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--------ataaga--ggcatccacaaaagcagcctcagacaacgcacatc--aactaacttcagttcaagtttttaaacagatcta---ttaataagtacttatgttgctgca-------gCCAACTCCATTACACCTTACTGTCAAAGAGTATGTTACCCCTGAGAAGTTTGCTTTCTGGAAGGAATATGGGGAGTCAATTGGATTCCGTTATGTTGCTAMapped 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|86085291|gb|DR381050.1|DR381050EST: ATCTAAGAGCTATAGATGTTGATATTCTAACACTTGGCCAGTATCTACAG CCAACTCCATTGCATCTGACTGTGAAAGAGTATGTCACACCTGAGAAGTTT
genomic: ATCTAAGAGCTATAGATGTTGATATTCTAACACTTGGCCAGTATCTACAGgtaaactaat ... cacaatgaagCCAACTCCATTGCATCTGACTGTGAAAGAGTATGTCACACCTGAGAAGTTT
EST:
gi|124717663|gb|EH809065.1|EH809065EST: TCTTAAGAGCTATAGATGTTGATATTCTAACACTTGGCCAGTATCTACAG CCAACTCCATTGCAT
genomic: TC-TAAGAGCTATAGATGTTGATATTCTAACACTTGGCCAGTATCTACAGgtaaactaat ... cacaatgaagCCAACTCCATTGCAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.caaatttcaaagaacatctacgatttaaaaccgtttctcttgttccacaatgaagCCAACTCCATTGCATCTGACTGTGAAAGAGTATGTCACACCTGAGAAGTTTGATTTCTGGAAAACATACGGAGAATCAATAGGATTTCGTTATGTTGCAA
ccgtttctcttgttcc CT-rich tract
atttaaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaactaatcacttcaacattccccacatcattcgcaatattcctatttccaagatagaaagatcccaaatttcaaagaacatctacgatttaaaaccgtttctcttgttccacaatgaagCCAACTCCATTGCATCTGACTGTGAAAGAGTATGTCACACCTGAGAAGTTTGATTTCTGGAAAACATACGGAGAATCAATAGGATTTCGTTATGTTGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA