Sequence
atgc intronic sequence ATGC exonic sequenceTAGTAGCATTTGTTAAAGCTCTATGCAAAGTCTCTATGTCAGAACTGCAGTCTCCTACGGATCCTCGAGTATTTAGCCTTACAAAATTAGTTGAGATCGCgtaagaatttcttcttttgatactctctttagaacacatagaatgagaaatggacatattgaatacatctcatcttggctacagaactggatatcgagtgagcatcatgatagtctaataagatgtcaacatatcatttacatatctcttttcttgctgtacag
Basic information
species | Arabidopsis thaliana |
transcript | AT4G38200.1 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G38200.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: LOC_Os06g41780.2 (Oryza sativa), 5'ss of exon 1
TAGTAGCATTTGTTAAAGCTCTATGCAAAGTCTCTATGTCAGAACTGCAGTCTCCTACGGATCCTCGAGTATTTAGCCTTACAAAATTAGTTGAGATCGCgtaagaatttcttcttttgatactctctttagaac-acatagaatgagaaatggacatattgaatacatctcatcttggctacagaactggatatcgagtgagcatcatgatagtctaataagatgtcaacatatcatttacatatctcttttcttgctgtacag
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TTGTTGCTTTTGTGAAAGCTCTTTGCAAGGTCTCAATGACTGAGTTGCAGTCTCCAACGGATCCTCGTATCTTCTGCCTTACAAAAATAGTAGAAATCGCgtaagaatttccta----gatccacttgtaaaacctacctttcactagcagatagtagctgtgacccagtacttgtcaactat----tctaattctgaactaaattcgtg-cag---------------------------------------------------
upper sequence: AT4G38200.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GRMZM2G365185_T01 (Zea mays), 5'ss of exon 7
TAGTAGCATTTGTTAAAGCTCTATGCAAAGTCTCTATGTCAGAACTGCAGTCTCCTACGGATCCTCGAGTATTTAGCCTTACAAAATTAGTTGAGATCGCgtaagaatttcttcttttgatactctctttagaacacatagaatgagaaatggacatattgaatacatctcatcttggctacagaactggatatcg-agtgagcatcatgatagtctaataagatgtcaacatatcatttacatatctcttttcttgctgtacag
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TTGTTGCTTTTGTGAAAGCTCTTTGCAAAGTTTCAATGACAGAGTTGCAGTCTCCTACAGATCCTCGTATTTTCTGCCTAACAAAGATTGTTGAGATTGCgtaagcttataatctatg---acctatgtcaagctacatgaaattatgaatatgtttgtagacaatatttt-ccaaaacgacctaattcgaagtttcattgcacag-----------------------------------------------------------
upper sequence: AT4G38200.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: Vv03s0038g04090.t01 (Vitis vinifera), 5'ss of exon 7
TAGTAGCATTTGTTAAAGCTCTATGCAAAGTCTCTATGTCAGAACTGCAGTCTCCTACGGATCCTCGAGTATTTAGCCTTACAAAATTAGTTGAGATCGCgtaagaatttcttcttttgatactctctttagaacacatagaatgagaaatggacatattgaatacatctcatcttggctacagaactggatatcgagtgagcatcatgatagtctaataagatgtcaacatatcatttacatatctcttttcttgctgtacag
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TAGTAGCTTTTGTGAAGGCTCTTTGCAAAGTTTCCATGTCAGAGTTGCAGTCTCCTACGGATCCTCGTGTATTCAGCCTCACAAAAATTGTTGAGATTGCgtaagcttatgctccttt----ttctttccagtctctctcaaatattc--tcatcaaatttcaaaattttcattctgtgaatgcactgataaactaattttatttt----------------------------------------------------------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|164213050|gb|EL977278.1|EL977278EST: GTATTTAGCCTTACAAAATTAGTTGAGATCGC CCACTACAACATGAACCGCATCAGGCTAGTCTGGTCTCGCATATGGAGCAT
genomic: GTATTTAGCCTTACAAAATTAGTTGAGATCGCgtaagaattt ... tgctgtacagCCACTACAACATGAACCGCATCAGGCTAGTCTGGTCTCGCATATGGAGCAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TAGTAGCATTTGTTAAAGCTCTATGCAAAGTCTCTATGTCAGAACTGCAGTCTCCTACGGATCCTCGAGTATTTAGCCTTACAAAATTAGTTGAGATCGCgtaagaatttcttcttttgatactctctttagaacacatagaatgagaaatggacatattgaatacatctcatcttggctacagaactggatatcgagtgagcatcatgatagtctaataagatgtcaacatatcatttacatatctcttttcttgctgtacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC