Sequence
atgc intronic sequence ATGC exonic sequencegtttgcgcatgatctttattatggaaaaatggcatgctgtcttttttggaggctaaccaacttaatcatccctttcgttgatttcagAGTGATAGTCATAATCTTAAGTACATGGGTATTGATGCTCTTGGCCGGCTAATAAAAATAAACCCAGATATTGCAGAAGAGCACCAGCTAGCTGTCATTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G146697_T03 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os01g68750.1 (Oryza sativa), 3'ss of exon 3
gtttgcgcatgatctttattatggaaa--aatggc-------atgctgtcttttttggaggctaaccaacttaatcatccctttcgttgatttcagAGTGATAGTCATAATCTTAAGTACATGGGTATTGATGCTCTTGGCCGGCTAATAAAAATAAACCCAGATATTGCAGAAGAGCACCAGCTAGCTGTCATTG
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gtgcacacaaagttcttatgtgagacataagtgattttcatgatgttgtgtccataggaaattaacctgcttcattaactcttttat-gtttgcagAGTGATAGCCATAATCTTAAGTACATGGGCATTGATGCTCTTGGCCGGTTAATTAAAATAAATCCAGATATCGCAGAAGAGCACCAGCTGGCTGTTATTG
upper sequence: GRMZM2G146697_T03 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA16G08320.1 (Glycine max), 3'ss of exon 2
--------------gtttgcgcatgatctttattatggaaaaatg-gcatgctgtcttttttgg--aggctaaccaacttaatcatcccttt-cgttgattt--------cagAGTGATAGTCATAATCTTAAGTACATGGGTATTGATGCTCTTGGCCGGCTAATAAAAATAAACCCAGATATTGCAGAAGAGCACCAGCTAGCTGTCATTG
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gtttgttttttggtgttggtggaagtgaattgtgtttgaagtttgtgcatactgtgcttgttaattgtgctgggctatgttgtgttacatgtgtgttgatgttatgtgggcagAGTGACAGCCATAATCTCAAGTACATGGGCATTGATGCGCTTGGTCGGCTGATAAAGATAAGTCCACATGTTGCAGAACAGCATCAACTGGCTGTCATTG
upper sequence: GRMZM2G146697_T03 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA16G20260.1 (Glycine max), 3'ss of exon 2
--------------gtttgcgcatgatctttattatggaaaaatg-gcatgctgtcttttttgg-aggctaaccaacttaatcatccctttcgttgattt-----cagAGTGATAGTCATAATCTTAAGTACATGGGTATTGATGCTCTTGGCCGGCTAATAAAAATAAACCCAGATATTGCAGAAGAGCACCAGCTAGCTGTCATTG
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gtttgttttttggtggtggtggaagtgaattgtatttgaattttgtgtataatgtgtttgttaatgggctatgttgtgtta-catgtgtgttgatgttatgtgggcagAGTGACAGTCATAATCTTAAGTACATGGGCATTGATGCGCTTGGTCGGCTGATAAAGATAAGTCCACATGTTGCAGAACAGCATCAACTGGCTGTCATTG
upper sequence: GRMZM2G146697_T03 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA09G35240.1 (Glycine max), 3'ss of exon 2
gtttgcgcatgatctttattatggaaaaatggcatgctgtcttttttgga---ggctaaccaacttaatcatccctttcgttgattt---------cagAGTGATAGTCATAATCTTAAGTACATGGGTATTGATGCTCTTGGCCGGCTAATAAAAATAAACCCAGATATTGCAGAAGAGCACCAGCTAGCTGTCATTG
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gtttgggga-gatgtgttgagtttacatgcaatgtgacattgctagtggacttggttattgtgtgtttacatgtatgttgttaattgttatgtgggcagAGTGACAGTCATAATCTCAAGTACATGGGCATTGATGCCCTTGGTCGGTTGATAAAGTTAAGTCCACATATTGCAGAACAGCACCAACTTGCCGTCATTG
upper sequence: GRMZM2G146697_T03 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA01G35650.1 (Glycine max), 3'ss of exon 2
----gtttgcgca-tgatctttattatggaa--aaatggcatgctgtcttttttggaggctaaccaacttaat---catccctttcgttgattt---------cagAGTGATAGTCATAATCTTAAGTACATGGGTATTGATGCTCTTGGCCGGCTAATAAAAATAAACCCAGATATTGCAGAAGAGCACCAGCTAGCTGTCATTG
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gtttggttaaatactgaaatgtgttttgagtttacatgatacgtgacattgttagtggatttggttattttgctcacatgcatgttgttaattgttatgtgggcagAGTGACAGTCATAATCTGAAGTACATGGGCATTGATGCCCTTGGTCGGTTGATAAAGTTAAGTCCACATATTGCAGAACAACACCAACTGGCCGTCATTG
upper sequence: GRMZM2G146697_T03 (Zea mays), 3'ss of exon 3
lower sequence: AT1G31730.1 (Arabidopsis thaliana), 3'ss of exon 2
gtttgcgcatgatctttattatggaaaaatggcatgctgtcttttttggaggctaaccaacttaatcatccctttcgttgatttcagAGTGATAGTCATAATCTTAAGTACATGGGTATTGATGCTCTTGGCCGGCTAATAAAAATAAACCCAGATATTGCAGAAGAGCACCAGCTAGCTGTCATTG
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gtttgttgtc--ttcctggtatgtatgcatatactcttgttaacctt--acgattgttatttaaatc-ccgggcaaactatttgcagAGTGATAGTCACAATCTGAAGTACATGGGTATTGATGGTCTTGGTCGATTGATAAAAATAAGCCCAGACATTGCTGAGCAGCACCAACTTGCTGTGATAG
upper sequence: GRMZM2G146697_T03 (Zea mays), 3'ss of exon 3
lower sequence: Vv02s0087g00690.t01 (Vitis vinifera), 3'ss of exon 3
-----------------------------------------gtttgcgcatgatctttattatggaaaaatggcatgctgtcttttttggaggctaaccaact-taatcatccctttcgttgatttcagAGTGATAGTCATAATCTTAAGTACATGGGTATTGATGCTCTTGGCCGGCTAATAAAAATAAACCCAGATATTGCAGAAGAGCACCAGCTAGCTGTCATTG
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gtttgtctccacacctttttagttgcgtcccacaactactaatttcctgattatcatcatcttagagcttttggttgccatattttgtaactcatgtttttctgttattatccttttgg-------cagAGTGATAGTCATAATCTAAAGTATATGGGCATTGATGCCCTTAGTAGACTGATAAAGATAAGTCCAGAAATTGCTGAACAACACCAATTGGCTGTCATTGMapped 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|211306615|gb|FL245975.1|FL245975EST: CATCAAAGTTTCTGAAG AGTGATAGTCATAATCTTAAGTACATGGGTATTGATGCTCTTGGCCGGCTA
genomic: CATCAAAGTTTCTGAAGgtttgcgcat ... ttgatttcagAGTGATAGTCATAATCTTAAGTACATGGGTATTGATGCTCTTGGCCGGCTA
EST:
gi|89762346|gb|DY689972.1|DY689972EST: ACCCTAAGATGCTAGAGGCTGCAGCTGAAACAACATCAAAGTTTCTGAAG AGTGATAGTCATAATCTTAAGTACATGGGTATTGATGCTCTTGGCCGGCTA
genomic: ACCCTAAGATGCTAGAGGCTGCAGCTGAAACAACATCAAAGTTTCTGAAGgtttgcgcat ... ttgatttcagAGTGATAGTCATAATCTTAAGTACATGGGTATTGATGCTCTTGGCCGGCTA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catgctgtcttttttggaggctaaccaacttaatcatccctttcgttgatttcagAGTGATAGTCATAATCTTAAGTACATGGGTATTGATGCTCTTGGCCGGCTAATAAAAATAAACCCAGATATTGCAGAAGAGCACCAGCTAGCTGTCATTG
tcatccctttcgtt CT-rich tract
tctttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgcgcatgatctttattatggaaaaatggcatgctgtcttttttggaggctaaccaacttaatcatccctttcgttgatttcagAGTGATAGTCATAATCTTAAGTACATGGGTATTGATGCTCTTGGCCGGCTAATAAAAATAAACCCAGATATTGCAGAAGAGCACCAGCTAGCTGTCATTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA