Sequence
atgc intronic sequence ATGC exonic sequencegtaaacattttatttatgacgcatcaagtactaccttggagtttgtaaaaaaaaactactaccttagagtcatggcactatgatttaagtgtttatttttttcctttttttgtggggcagGCATTTGATCAGCAGCAGCAAGATCTGGTTGATGCTGCATCGAAAGCTTTGTCCTACAGACAGGATATTATCGAAGAAAACATCCGTCTTACATATGCAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G104377_T03 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os05g01060.2 (Oryza sativa), 3'ss of exon 6
gtaaacattttatttatgacgcatcaagtactaccttggagtttgtaaaaaaaaactactaccttagagtcatggcactatgatttaagtgtttatttttttcctttttttgtggggcagGCATTTGATCAGCAGCAGCAAGATCTGGTTGATGCTGCATCGAAAGCTTTGTCCTACAGACAGGATATTATCGAAGAAAACATCCGTCTTACATATGCAT
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-----------------------gtaagtattttgtcttatcaggtattgaaaaatc----tcttggagt-acaacaccat----------tttacaatgcatctgtttt-------cagGCATTCGATCAGCAGCAACAAGATTTGGTTGATGCTGCATCAAAAGCTTTATCCTACAGACAAGACATTATTGAAGAAAATATCCGTCTGACATATGCCT
upper sequence: GRMZM2G104377_T03 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA10G31880.1 (Glycine max), 3'ss of exon 7
----gtaaacattttatttatgacgcatcaagtactaccttggagtttgtaaaaaa--aaactactaccttagagtcatggcactatgatttaagtgtttatttttttcctttttttgtggggcagGCATTTGATCAGCAGCAGCAAGATCTGGTTGATGCTGCATCGAAAGCTTTGTCCTACAGACAGGATATTATCGAAGAAAACATCCGTCTTACATATGCAT
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gtatgcatgaaattttgtcaaagtctttgtgaaattccttaagcatcttttatgttttgcacttttccttttatttgattgagcttctgctcaaataaataatttgtaatattgct-----gctagGCCTTTGATCAGCAGCAACAGGACCTTGTAGATGCTGCATCAAAAGCTTTATCATACCGACAAGACATAATTGAAGAAAATATACGTCTTACATATGCAT
upper sequence: GRMZM2G104377_T03 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA20G35770.1 (Glycine max), 3'ss of exon 8
----gtaaacattttatttatgacgcatcaagtactaccttggagtttgtaaaaaaaaac-tactaccttagagtca-tggcactatgatttaagtgtttatttttttcctttttttgtggggcagGCATTTGATCAGCAGCAGCAAGATCTGGTTGATGCTGCATCGAAAGCTTTGTCCTACAGACAGGATATTATCGAAGAAAACATCCGTCTTACATATGCAT
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gtatgcatgaaattttgttgaaatctttgtgaaattccttaagcatcttttgtgttttgcatttttccttatatttggttgagcttctgctcaaataaataatttgtaatattgct-----gctagGCCTTTGATCAGCAGCAACAGGACCTTGTAGATGCTGCATCAAAAGCTTTATCATACCGACAAGACATAATTGAAGAAAATATACGTCTTACATATGCAT
upper sequence: GRMZM2G104377_T03 (Zea mays), 3'ss of exon 5
lower sequence: AT5G08440.2 (Arabidopsis thaliana), 3'ss of exon 6
-----gtaaacattttatttatgacgcatcaagtactaccttggagtttgtaaaaaaaaactactaccttagagtcatggcactatgatttaagtgtttatttttttcctttttttgtggggcagGCATTTGATCAGCAGCAGCAAGATCTGGTTGATGCTGCATCGAAAGCTTTGTCCTACAGACAGGATATTATCGAAGAAAACATCCGTCTTACATATGCAT
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gttagcttttctttttatctattacaaaatatgtgtaacttt--atcttgtgacgaattatagttactt----attctgtta--accacttagggggtaatttat---ctttcttgttgtgacagGCATTTGACCAACAACAACAAGACCTTGTTGATGCTGCATCAAAAGCTCTTTCTTACAGACAAGAGATCATTGAGGAAAATATACGCCTAACATATGCCT
upper sequence: GRMZM2G104377_T03 (Zea mays), 3'ss of exon 5
lower sequence: AT5G23490.1 (Arabidopsis thaliana), 3'ss of exon 6
gtaaacattttatttatgacgcatcaagtactaccttggagtttgtaaaaaaaaactactaccttagagtcatggcactatgatttaagtgtttatttttttcctttttttgtggggcagGCATTTGATCAGCAGCAGCAAGATCTGGTTGATGCTGCATCGAAAGCTTTGTCCTACAGACAGGATATTATCGAAGAAAACATCCGTCTTACATATGCAT
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gtaggcctttccttttttttac-ttatctgttttattc-atctcgtattaaatgtatttaatttaattgtt-------tggaagctgaaagattgttgctgttgt---------aaccagGCATTTGATCAACAGCAACAAGATCTTGTTGATGCTTCATCAAAAGCTCTCTCTTACAGACAAGAGATAATTGAAGAAAATATACGCCTAACATATGCCTMapped 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|22490477|gb|BU050400.1|BU050400EST: CGCATTGCATATATGCGCATG GCATTTGATCAGCAGCAGCAAGATCTGGTTGATGCTGCATCGAAAGCTTTG
genomic: CGCATTGCATATATGCGCATGgtaaacattt ... tgtggggcagGCATTTGATCAGCAGCAGCAAGATCTGGTTGATGCTGCATCGAAAGCTTTG
EST:
gi|19058176|gb|BM736843.1|BM736843EST: CGCATTGCATATATGCGCATG GCATTTGATCAGCAGCAGCAAGATCTGGTTGATGCTGCATCGAAAGCTTTG
genomic: CGCATTGCATATATGCGCATGgtaaacattt ... tgtggggcagGCATTTGATCAGCAGCAGCAAGATCTGGTTGATGCTGCATCGAAAGCTTTG
EST:
gi|32930925|gb|CF035737.1|CF035737EST: TACTTAATGAGAAACATGTCCTGGAAAAACGCATTGCATATATGCGCATG GCATTTGATCAGCAGCAGCAAGATCTGGTTGATGCTGCATCGAAAGCTTTG
genomic: TACTTAATGAGAAACATGTCCTGGAAAAACGCATTGCATATATGCGCATGgtaaacattt ... tgtggggcagGCATTTGATCAGCAGCAGCAAGATCTGGTTGATGCTGCATCGAAAGCTTTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agagtcatggcactatgatttaagtgtttatttttttcctttttttgtggggcagGCATTTGATCAGCAGCAGCAAGATCTGGTTGATGCTGCATCGAAAGCTTTGTCCTACAGACAGGATATTATCGAAGAAAACATCCGTCTTACATATGCAT
tgtttatttttttcct CT-rich tract
atttaagtgtttattt 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
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gtaaacattttatttatgacgcatcaagtactaccttggagtttgtaaaaaaaaactactaccttagagtcatggcactatgatttaagtgtttatttttttcctttttttgtggggcagGCATTTGATCAGCAGCAGCAAGATCTGGTTGATGCTGCATCGAAAGCTTTGTCCTACAGACAGGATATTATCGAAGAAAACATCCGTCTTACATATGCAT
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