Sequence
atgc intronic sequence ATGC exonic sequence...gaaccttcaaccacatgagattgttgaacaggtcctccctcagcaacccctctgtctttcttcatccctcaatgcaacgttaaatattatgccattgcagGTGTTGGCCATCGAGGAGACGTTCAAACACAGGGTGACAAATGTTGTGTTCATGGGGATGGGTGAGCCCATGATGAACCTCAAGTCAGTTCTAGAAGCAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G168412_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os01g74190.1 (Oryza sativa), 3'ss of exon 5
gaaccttcaaccacatgagattgttgaacaggtcctccctcagcaacccctctgtctttcttcatccctcaatgcaacgttaaatattatgccattgcagGTGTTGGCCATCGAGGAGACGTTCAAACACAGGGTGACAAATGTTGTGTTCATGGGGATGGGTGAGCCCATGATGAACCTCAAGTCAGTTCTAGAAGCAC
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-gttgtctctccacaacccacc-tagtacagcgtttatgtacaaaaaagataaattgtgcttgttcttgcacaaca--gattaatattctggcgttgcagGTTTTGGCCATAGAGGAGACGTTCCAACACAGGGTGACAAATGTAGTGTTCATGGGGATGGGTGAGCCTATGTTGAACCTGAAATCAGTTTTAGAGGCAC
upper sequence: GRMZM2G168412_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA02G41500.1 (Glycine max), 3'ss of exon 5
gaaccttcaaccac-atgagattgttgaacag-gtcctccctcagcaacccctctgtctttcttcatccctcaatgca-acgttaaatattatgccattgcagGTGTTGGCCATCGAGGAGACGTTCAAACACAGGGTGACAAATGTTGTGTTCATGGGGATGGGTGAGCCCATGATGAACCTCAAGTCAGTTCTAGAAGCAC
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-ggctttggatcattatcattgtgtttaggattgtaaaaattctgaaacaagcttagctttgtttactgcaagacggataaaattcatcttatgtga--acagGTCTTGGCCATTGAGGAGGTCTTCAAGAATAGGGTGACAAATGTAGTGTTTATGGGAATGGGTGAACCAATGTTAAACCTGAAGGCAGTACTTGAAGCAC
upper sequence: GRMZM2G168412_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA14G07450.1 (Glycine max), 3'ss of exon 5
gaaccttcaaccacatgagat-tgttgaacag-gtcctccctcagcaacccctctgtctttcttcatccctcaatgcaacgttaaatattatgccatt---gcagGTGTTGGCCATCGAGGAGACGTTCAAACACAGGGTGACAAATGTTGTGTTCATGGGGATGGGTGAGCCCATGATGAACCTCAAGTCAGTTCTAGAAGCAC
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---ctctggatcattctcattgtgtttaggattgtaaatgttctgaaacaagcttaactttgttta--ccacaagacagggataaaattcatcttatgtgaacagGTCTTGGCCATTGAGGAGGTCTTCAAGAATAGGGTGACAAATGTAGTGTTTATGGGAATGGGTGAACCAATGTTAAACCTGAAGGCAGTACTTGAAGCAC
upper sequence: GRMZM2G168412_T01 (Zea mays), 3'ss of exon 4
lower sequence: AT2G39670.1 (Arabidopsis thaliana), 3'ss of exon 5
---------gaaccttcaaccacatgagattgttgaacaggtcctccctcagcaacccctctgtctttctt-catccctcaatgcaacgttaaatattatgccattgcagGTGTTGGCCATCGAGGAGACGTTCAAACACAGGGTGACAAATGTTGTGTTCATGGGGATGGGTGAGCCCATGATGAACCTCAAGTCAGTTCTAGAAGCAC
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tttagaagcagttgtgtgatcccatttaagacccgga-agaagaattcttagtaaaatgttaatgtggcttgtgtttacaagtgtaattttgaatgtca---------agGTGTTGGCTATCGAGGACGTGTTCAAGCATAGGGTGACAAATGTGGTTTTCATGGGAATGGGTGAGCCGATGTTGAACCTAAAGTCAGTACTTGATGCTC
upper sequence: GRMZM2G168412_T01 (Zea mays), 3'ss of exon 4
lower sequence: Vv13s0019g01070.t01 (Vitis vinifera), 3'ss of exon 5
gaaccttcaaccacatgagattgttgaacaggtcctccctcagcaacccctctgtctttcttcatccctcaatgcaacgttaaatattatgccat---tgcagGTGTTGGCCATCGAGGAGACGTTCAAACACAGGGTGACAAATGTTGTGTTCATGGGGATGGGTGAGCCCATGATGAACCTCAAGTCAGTTCTAGAAGCAC
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-aacttcta--tgtttaagatttgacagcatcagtttcactaaagctctgtgtttctttattcaacttagtacattgtgttttctattttactatgtgcacagGTCTTGGCAATAGAGGAGATCTTTAAGCAAAGGGTGACAAATGTGGTGTTTATGGGAATGGGCGAACCAATGTTGAACCTGAAATCAGTTATTGAAGCTCMapped 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|32803194|gb|CD955430.1|CD955430EST: GATCCTCTGCTATTGGGCACTGTTATTCAAACGGTA GTGTTGGCCATCGAGGAGACGTTCAAACACAGGGTGACAAATGTTGTGTTC
genomic: GATCCTCTGCTATTGGGCACTGTTATTCAAACGGTAgtatgtatgc ... gccattgcagGTGTTGGCCATCGAGGAGACGTTCAAACACAGGGTGACAAATGTTGTGTTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acccctctgtctttcttcatccctcaatgcaacgttaaatattatgccattgcagGTGTTGGCCATCGAGGAGACGTTCAAACACAGGGTGACAAATGTTGTGTTCATGGGGATGGGTGAGCCCATGATGAACCTCAAGTCAGTTCTAGAAGCAC
aacgttaaatattat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gaaccttcaaccacatgagattgttgaacaggtcctccctcagcaacccctctgtctttcttcatccctcaatgcaacgttaaatattatgccattgcagGTGTTGGCCATCGAGGAGACGTTCAAACACAGGGTGACAAATGTTGTGTTCATGGGGATGGGTGAGCCCATGATGAACCTCAAGTCAGTTCTAGAAGCAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - -caaccac
- - - - - - - - - - -tgttgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aatgcaa