Sequence
atgc intronic sequence ATGC exonic sequencegcaagtcaagtcggctccggtccattccatccaatgccaatgccaatatagtacatgtttatttatatatatgccatggttggtggatgatcatgcatgcagGGGCGCTCGCGCGTCGGTGTGGGAGAACTTCAAGGACAACCCGCTGTTCGACATCTCGACGGAGCACCCGTCGACGTACTACGAGGACATGCAGCGCGCC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G448834_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA06G17140.1 (Glycine max), 3'ss of exon 3
gcaagtcaagtc-ggctccg-gtccattccatccaatgccaatgccaata-tagtacatgtttatttatatatatgccatggttggtggatgatcatgcatgcagGGGCGCTCGCGCGTCGGTGTGGGAGAACTTCAAGGACAACCCGCTGTTCGACATCTCGACGGAGCACCCGTCGACGTACTACGAGGACATGCAGCGCGCC
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-tgcatgaagtttggttccatgtcttgatgctttcataccaaaacgaataacaataaatgatcctgaaagctcaaac--tgactg-tacttttgtat-cttacagAGGTGCCAGAGCAGCAGTGTGGGAGAACTTTAAGGACAATCCACTGTTTGACATTTCCACAGAGCATCCAACAACATACTACGAGGACATGCAACGAGCT
upper sequence: GRMZM2G448834_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA05G33420.1 (Glycine max), 3'ss of exon 3
gcaagtcaagtcggctccggtccattccatccaatgccaatgccaatatagtacatgtttatttatatatatg-ccatggttggtgga--tgatcatg---------catgcagGGGCGCTCGCGCGTCGGTGTGGGAGAACTTCAAGGACAACCCGCTGTTCGACATCTCGACGGAGCACCCGTCGACGTACTACGAGGACATGCAGCGCGCC
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--------------atgaagtttggtgcatgcaatgatgctttcataacaaaacacacttggatcaacaaataatcctggttgatgaaactgaccgtgttttgcaatcttgcagAGGCGCAAGAGCAGCAGTGTGGGAGAACTTTAAGGACAATCTGCTGTTTGACATCTCCACTGAGCATCCAACCACTTACTACGAGGACATGCAAAGAGCC
upper sequence: GRMZM2G448834_T02 (Zea mays), 3'ss of exon 2
lower sequence: AT1G27440.1 (Arabidopsis thaliana), 3'ss of exon 3
gcaagtca--agtcggctccggtccattccatccaatgccaatgccaatatagtacatgtttatttatatatatgccatggttggtggatgatcatgcatgcagGGGCGCTCGCGCGTCGGTGTGGGAGAACTTCAAGGACAACCCGCTGTTCGACATCTCGACGGAGCACCCGTCGACGTACTACGAGGACATGCAGCGCGCC
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acaattaagcattcctcattaggaagttaggttatatat-aaggttagctaagatcaaattgttttaga-atctgc--tgactggaacttctctctttgtatagAGGTGCAAGAGCAGCGGTGTGGGAGAACTTCAAGAACAACCCTTTGTTTGACATCTCAACAGATCACCCGACAACATACTACGAAGACATGCAGAGAGCC
upper sequence: GRMZM2G448834_T02 (Zea mays), 3'ss of exon 2
lower sequence: AT5G61840.1 (Arabidopsis thaliana), 3'ss of exon 3
-----------------------------------------------------------------------------------------gcaagtcaagtcg---gctccggtccattccatccaatgccaatgccaatatagtacatgtttatttatatatatgccatggttggtggatgatcatgc--atgcagGGGCGCTCGCGCGTCGGTGTGGGAGAACTTCAAGGACAACCCGCTGTTCGACATCTCGACGGAGCACCCGTCGACGTACTACGAGGACATGCAGCGCGCC
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gtaatttttttcttatgaaagttcttagctattgttcataataaatttcataaatctcctaaaacagttcataattgctttatcggtttggaattttggacataaaactcaaaaaaggaaaatttatcagactgtttttagagccatggattgttcttataatcagtgatgatgtttgtttgtcaaactggcacagGGGTGCAAGAGCAGCTGTATGGGAAAACTTCAAAGACAATCCGCTGTTTGACATCTCAACAGAGCACCCAACAACATATTATGAGGACATGCAGAGAGCA
upper sequence: GRMZM2G448834_T02 (Zea mays), 3'ss of exon 2
lower sequence: Vv01s0150g00180.t01 (Vitis vinifera), 3'ss of exon 3
-gcaagtcaagtcggctccggtccattccatccaatgccaatgccaatatagtacatgtttatttatatatatgccatggttggtggatgatcatgcatgcagGGGCGCTCGCGCGTCGGTGTGGGAGAACTTCAAGGACAACCCGCTGTTCGACATCTCGACGGAGCACCCGTCGACGTACTACGAGGACATGCAGCGCGCC
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aggaagcaacatcttgtatgatacatggc-tttgtcttttatattag-gtcctttgggttgaatgaatcaactcctatc-taactcttttaattgattgacagAGGTGCAAGGGCAGCAGTTTGGGAGAACTTTAAGGACAACCCGCTCTTTGACATCTCCACTGAGCACCCAACGACATATTATGAAGACATGCAACGTGCT
upper sequence: GRMZM2G448834_T02 (Zea mays), 3'ss of exon 2
lower sequence: EFJ05285 (Selaginella moellendorffii), 3'ss of exon 3
gcaagtcaagtcggctccggtccattccatccaatgccaatgccaatatagtacatgtttatttatatatatgccat---ggttggtggatgatcatgcatgcagGGGCGCTCGCGCGTCGGTGTGGGAGAACTTCAAGGACAACCCGCTGTTCGACATCTCGACGGAGCACCCGTCGACGTACTACGAGGACATGCAGCGCGCC
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-------------------gtaaagttctctcaatac----------atagaaaagctttgtttgaaaagatcttattccgttctgacattttctgctcatgcagGGGTGCTCGTGCTGCTGTTTGGGAGAATTTCAAGGATAATCCTCTCTTTGACATCTCTACCGAGCACCCGATTACGTACTATGAGGACATGCAGCGAGCT
upper sequence: GRMZM2G448834_T02 (Zea mays), 3'ss of exon 2
lower sequence: EFJ25836 (Selaginella moellendorffii), 3'ss of exon 3
gcaagtcaagtcggctccggtccattccatccaatgccaatgccaatatagtacatgtttatttatatatatgccat---ggttggtggatgatcatgcatgcagGGGCGCTCGCGCGTCGGTGTGGGAGAACTTCAAGGACAACCCGCTGTTCGACATCTCGACGGAGCACCCGTCGACGTACTACGAGGACATGCAGCGCGCC
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-------------------gtaaagttctctcaatac----------atagaaaagctttgtttgaaaagatcttattcggttctgacatttgctgctcatgcagGGGTGCTCGTGCTGCTGTTTGGGAGAATTTCAAGGATAATCCTCTCTTTGACATCTCTACCGAGCACCCGATTACGTACTACGAGGACATGCAGCGAGCTMapped 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|211236697|gb|FK961129.1|FK961129EST: GGCCTCTTCTACGACATGGGCAACGACCCCGAGGGCGGCTACTACGCCAG GGGC-CTCGCGCGTCGGTGTGGGAGAACTTCAAGGACAACCCGCTGTTCGA
genomic: GGCCTCTTCTACGACATGGGCAACGACCCCGAGGGCGGCTACTACGCCAGgcaagtcaag ... atgcatgcagGGGCGCTCGCGCGTCGGTGTGGGAGAACTTCAAGGACAACCCGCTGTTCGA
EST:
gi|148954547|gb|EC899984.2|EC899984EST: GGCCTTTTTTACGACATGGGCAACGACCCCGAGGGCGGTTATTACCCCAG GGGCGCTCGCGCGTCGGTGTGGGAGAACTTCAAGGACAACCCGCTGTTCGA
genomic: GGCCTCTTCTACGACATGGGCAACGACCCCGAGGGCGGCTACTACGCCAGgcaagtcaag ... atgcatgcagGGGCGCTCGCGCGTCGGTGTGGGAGAACTTCAAGGACAACCCGCTGTTCGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atagtacatgtttatttatatatatgccatggttggtggatgatcatgcatgcagGGGCGCTCGCGCGTCGGTGTGGGAGAACTTCAAGGACAACCCGCTGTTCGACATCTCGACGGAGCACCCGTCGACGTACTACGAGGACATGCAGCGCGCC
acatgtttatttatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcaagtcaagtcggctccggtccattccatccaatgccaatgccaatatagtacatgtttatttatatatatgccatggttggtggatgatcatgcatgcagGGGCGCTCGCGCGTCGGTGTGGGAGAACTTCAAGGACAACCCGCTGTTCGACATCTCGACGGAGCACCCGTCGACGTACTACGAGGACATGCAGCGCGCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA