Sequence
atgc intronic sequence ATGC exonic sequencegttagtggaaggggtttcatttttgcatactttctcatagttgccttcccactctgtagtttcaatatcttccaagatggatatatgcattgtttcttttatcgctccaattgatcaagagatcggcctttttattcattcggcaatggcagGTGGAAAATCCAAAGATGGGGGGTCTGTTCCAAAGAAGGGCAGTAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G174785_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os02g08360.1 (Oryza sativa), 3'ss of exon 3
gttagtggaaggggtttcatttttgcatactttctcatagttgccttcccactctgtagtttcaatatcttccaagatggatatatgcattgtttcttttatcgctccaattgatcaagagatcggcctttttattcattcggcaatggcagGTGGAAAATCCAAAGATGGGGGGTCTGTTCCAAAGAAGGGCAGTAG
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gttagtgatatggtttacattttcatataccttgttgtagttggctttactctttgtagattgaaaatcat----gatggatatatacattgtttcttctattgctccaattaatcaagagaccggcctttttattcattcggcaatggcagGTGGAAAGTCCAAAGATGGGGGGTCTGTTCCAAAGAAGGGCAGTAG
upper sequence: GRMZM2G174785_T01 (Zea mays), 3'ss of exon 3
lower sequence: AT5G25060.1 (Arabidopsis thaliana), 3'ss of exon 2
gttagtg---gaaggggtttca----tttttgcatactttctcatagttgccttcccactctgtagtttcaatatcttccaagatggatat----------atgcattgtttcttttatc----gctccaattgatcaagagatcggccttttt---attcattcggcaatggcagGTGGAAAATCCAAAGATGGGGGGTCTGTTCCAAAGAAGGGCAGTAG
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gttagtctttgcaaaggctacacagctttttaactgtttgtttacaattgc-ttctctctttgtgtgtactttgttctttttgattggtgtcaaatggttagagcaatgctttgattatattgggaacgcattaataagtgtatggaccttttttctatgcgttcgcggatggcagGTGAAAAGTCCAAAGATGGGGGTTCGGTTTCAAAGAAGGGGAGTAG
upper sequence: GRMZM2G174785_T01 (Zea mays), 3'ss of exon 3
lower sequence: Vv04s0008g06810.t01 (Vitis vinifera), 3'ss of exon 2
---------gttagtggaaggggtttcatttttgcatac-----------tttctcatagttgccttcccactctgtagtttcaat---atcttccaagatggatatatgcattgtttctt--ttatcgct-ccaattgatcaagagatcggcctttttattcattcggcaatggcagGTGGAAAATCCAAAGATGGGGGGTCTGTTCCAAAGAAGGGCAGTAG
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gttagtatggttaaggaactatgtattttccttgctttcaattattgattttttacaaagtattcttgttatgttttagtcttgtttttgtttcatactatggatatatgaataattttttcattatggggatccgttaataaaaatatggacctttttattcattcgcaaatggcagGTGAAAAGTCGAAAGATGGGGTATCTGTTCCAAAGAAGGGAAGTAGMapped 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|211440383|gb|FL447089.1|FL447089EST: CCGAGGTGGTGTGATTGACCCCAATGCAAAGCTGAAGACTGACTCGGAAG GTGGAAAATCCAAAGATGGGGGGTCTGTTCCAAAGAAGGGCAGTAG
genomic: CCGAGGTGGTGTGATTGACCCCAATGCAAAGCTGAAGACTGACTCGGAAGgttagtggaa ... gcaatggcagGTGGAAAATCCAAAGATGGGGGGTCTGTTCCAAAGAAGGGCAGTAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttatcgctccaattgatcaagagatcggcctttttattcattcggcaatggcagGTGGAAAATCCAAAGATGGGGGGTCTGTTCCAAAGAAGGGCAGTAG
aattgat putative branch site (score: 4)
tttttattcatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagtggaaggggtttcatttttgcatactttctcatagttgccttcccactctgtagtttcaatatcttccaagatggatatatgcattgtttcttttatcgctccaattgatcaagagatcggcctttttattcattcggcaatggcagGTGGAAAATCCAAAGATGGGGGGTCTGTTCCAAAGAAGGGCAGTAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG