Sequence
atgc intronic sequence ATGC exonic sequencegttcttttcatttactgatatcagaaatataaatttcctttggctcctgttgtgtataaccttgtattttttgtgtgcagTCGTCAACCTATGGGAAAGTCCTTGTGCTTGATGGTATTGTTCAATTGACTGATAAGGATGAATGTGCGTACCAGGAAATGATTACTCACCTCCCACTCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G120578_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os02g15550.1 (Oryza sativa), 3'ss of exon 4
--------gttcttttcatttactgatatcagaaatataaatttcctttggctcctgttgt-----gtataac------------cttgtattttttgtgtgcagTCGTCAACCTATGGGAAAGTCCTTGTGCTTGATGGTATTGTTCAATTGACTGATAAGGATGAATGTGCGTACCAGGAAATGATTACTCACCTCCCACTCT
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gttctcaacttctcatcacctattgacagccaaaataaaaaaaaaatctagtatttattatactttgtattacagtgttgtgtgacctgttttttttttatgcagTCCTCAACCTATGGAAAAGTTCTTGTCCTTGATGGTATTGTCCAGTTGACTGATAAGGATGAATGTGCGTACCAGGAAATGATTACTCACCTTCCGCTTT
upper sequence: GRMZM2G120578_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA06G13210.3 (Glycine max), 3'ss of exon 4
----gttcttttcatttactgatatcagaaatataaatttcctttggctcctgttgtgtataaccttgtattttttgtgtgcagTCGTCAACCTATGGGAAAGTCCTTGTGCTTGATGGTATTGTTCAATTGACTGATAAGGATGAATGTGCGTACCAGGAAATGATTACTCACCTCCCACTCT
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gtttggtctcttcatcttatgattt----actataaattttacatgaaa---gtgataaatg--ctaatccttttgttttgcagTCATCAATGTATGGGAATGTGCTTGTACTTGATGGAATAGTTCAATTGACTGAGAGGGATGAATGTGCTTACCAGGAGATGATAGCTCATCTTCCCCTCT
upper sequence: GRMZM2G120578_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA04G41600.1 (Glycine max), 3'ss of exon 4
gttcttttcatttactgatatcagaaatataaatttcctttggctcctgttgtgtataaccttgtattttttgtgtgcagTCGTCAACCTATGGGAAAGTCCTTGTGCTTGATGGTATTGTTCAATTGACTGATAAGGATGAATGTGCGTACCAGGAAATGATTACTCACCTCCCACTCT
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----gtttggcctcttcatcttataa-tgtactataactttaacgtgaaagggatagatgctaatcctttcattttgcagTCATCAACTTATGGGAAAGTGCTTGTACTTGATGGAATAGTTCAATTGACTGAGAAGGATGAATGTGCTTACCAGGAGATGATAGCTCATCTTCCCCTCT
upper sequence: GRMZM2G120578_T02 (Zea mays), 3'ss of exon 3
lower sequence: Vv16s0050g02670.t01 (Vitis vinifera), 3'ss of exon 4
------------------------------------------------gttcttttcatttactgatatcagaaatataaatttcctttggctcctgttgtgta--taaccttgtattttttgtgtgcagTCGTCAACCTATGGGAAAGTCCTTGTGCTTGATGGTATTGTTCAATTGACTGATAAGGATGAATGTGCGTACCAGGAAATGATTACTCACCTCCCACTCT
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gttctgcattctgaactctaaatactagtgttgttcgaagttgacttagtttccattttttatctatctgtcatgttcttcttttctttcttctatattagctagctaatgcagattcttttatttgcagTCGTCAGCATATGGCAAAGTGCTTGTGCTTGATGGCATTGTTCAGTTGAGCGAGAAAGATGAATGTGCCTATCAGGAGATGATTGCTCACCTTCCCCTTTMapped 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|149079124|gb|EE168043.2|EE168043EST: ATATTGTACCAGGGGGAAAATCACCATACCAGGAAGTCCTGGTCTTTGAG TCGTCAACCTATGGGAAAGTCCTTGTGCTTGATGGTATTGTTCATTTGACT
genomic: ATATTGTACCAGGGG-AAA-TCACCATACCAGGAAGTCCTGGTCTTTGAGgttcttttca ... ttgtgtgcagTCGTCAACCTATGGGAAAGTCCTTGTGCTTGATGGTATTGTTCAATTGACT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatataaatttcctttggctcctgttgtgtataaccttgtattttttgtgtgcagTCGTCAACCTATGGGAAAGTCCTTGTGCTTGATGGTATTGTTCAATTGACTGATAAGGATGAATGTGCGTACCAGGAAATGATTACTCACCTCCCACTCT
gtataac putative branch site (score: 3)
tatttttt putative PPT
ttgtatttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttcttttcatttactgatatcagaaatataaatttcctttggctcctgttgtgtataaccttgtattttttgtgtgcagTCGTCAACCTATGGGAAAGTCCTTGTGCTTGATGGTATTGTTCAATTGACTGATAAGGATGAATGTGCGTACCAGGAAATGATTACTCACCTCCCACTCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG