Sequence
atgc intronic sequence ATGC exonic sequenceCAGAGGACACAAAAATGAAAAGAACTTTGTTGGCTTGTCTGTGAACAATGAATATATTGCTTGTGGAAGTGAGACAAATGAGGTTTTTGTTTATCACAAGgtaatggcaagcttctgtcctggtcatgttcccatgcagcatgcattgttatgatgtgtgactcaatataatcaatcagatgggttcctaactctacactgattgcag
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G104920_T03 (Zea mays), 5'ss of exon 12
lower sequence: LOC_Os02g53140.1 (Oryza sativa), 5'ss of exon 12
CAGAGGACACAAAAATGAAAAGAACTTTGTTGGCTTGTCTGTGAACAATGAATATATTGCTTGTGGAAGTGAGACAAATGAGGTTTTTGTTTATCACAAGgtaatggcaagcttctgtcctggtcatgttcccatg--cagcatgcattgttatgatgtgtgactcaatata---atcaatcagatg-ggttcctaactctacactgattgcag---------------------
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CAGAGGGCACAAGAATGAAAAGAACTTTGTTGGGCTGTCTGTAAATAACGAGTACATTGCCTGCGGGAGTGAAACGAATGAGGTTTTTGTTTACCACAAGgtaattgcaagcttattgcctgctcttgtttccgtatctgtgattcagcattatgtgccatgcttaactgtacaggttggtctcctgtggcaccatataccattctaacttcaagtaactctgtaccaattgcag
upper sequence: GRMZM2G104920_T03 (Zea mays), 5'ss of exon 12
lower sequence: GLYMA02G43540.1 (Glycine max), 5'ss of exon 12
CAGAGGACACAAAAATGAAAAGAACTTTGTTGGCTTGTCTGTGAACAATGAATATATTGCTTGTGGAAGTGAGACAAATGAGGTTTTTGTTTATCACAAGgtaatggcaagcttctgtcctg-gtcatgttcccatgcagcatgcattgttatgatgtgtgactcaatataatcaatcagatgggttcctaactctacactgattgcag
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CAAAGGCCATGCAAATGAGAAAAACTTTGTTGGTCTTACAGTAAGCAGTGAATATATTGCGTGTGGCAGTGAAACAAATGAAGTCTTTGTTTACCACAAGgt--ttgtggttttcaattatgtgtcgttttcttgtgca-tttacctt-ttatt-tatggtactgaggat------tcaagtgcccttccttttcag------------
upper sequence: GRMZM2G104920_T03 (Zea mays), 5'ss of exon 12
lower sequence: Vv12s0059g01420.t01 (Vitis vinifera), 5'ss of exon 12
CAGAGGACACAAAAATGAAAAGAACTTTGTTGGCTTGTCTGTGAACAATGAATATATTGCTTGTGGAAGTGAGACAAATGAGGTTTTTGTTTATCACAAGgt-aatggcaa--gcttctgtcctggtcatgttcccatgcagcatgc-attgttatgatgtgtgactcaatataatcaatcagatgggttcctaactctacactgattgcag
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CAGAGGACACACTAATGAGAAGAACTTCGTGGGCCTCTCTGTAAACAGTGAATATATTTCTTGTGGCAGTGAAACAAACGACGTCTTCGTCTACCATAAGgttagtagtacctgatcttaaaacagcca-attttcatgcattttactattatactaagaatccatttgatagtaattctaggaaacgcttttactatttt-----------
upper sequence: GRMZM2G104920_T03 (Zea mays), 5'ss of exon 12
lower sequence: PP1S264_64V6.1 (Physcomitrella patens), 5'ss of exon 13
CAGAGGACACAAAAATGAAAAGAACTTTGTTGGCTTGTCTGTGAACAATGAATATATTGCTTGTGGAAGTGAGACAAATGAGGTTTTTGTTTATCACAAGgtaatggcaagcttctgtcctggtcatgttcccatgcagcatgcattgttatgatgtgtgactcaatataatcaatcagatgggttcctaactcta--cactgattgcag
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GAGAGGACATACCAACGAAAAGAATTTTGTTGGGCTATCTGTTAACAGTGAATATATAGGTTGTGGTAGTGTAACAAATGAGGTGTTTGTTTACCACAAGgtaacg------ttttgtttctgtttagtactagtgcacattgtgatcgtggaatcttttgttttttacaact--tcaagtaaacttctgtttatgacctttgcttgt--
upper sequence: GRMZM2G104920_T03 (Zea mays), 5'ss of exon 12
lower sequence: PP1S154_52V6.1 (Physcomitrella patens), 5'ss of exon 12
CAGAGGACACAAAAATGAAAAGAACTTTGTTGGCTTGTCTGTGAACAATGAATATATTGCTTGTGGAAGTGAGACAAATGAGGTTTTTGTTTATCACAAGgtaatggcaagcttctgtcctggtcatgttcccatgcagcatgcattgttatgatgtgtgactca-atataatcaatcagatgggttcctaactctacactgattgcag
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CAGAGGACACACAAATGAGAAGAATTTTGTAGGATTGACTGTAAACAATGAGTATATTGCCTGCGGGAGTGAATCAAATGAGGTTTTCGTGTATCATAAGgttagacccagactctacat---acactttttccagattcactgattgt-acaac-tgtggtgcagattttgtttttgcaacatttctccaatttaccagtctcc----
upper sequence: GRMZM2G104920_T03 (Zea mays), 5'ss of exon 12
lower sequence: PP1S86_153V6.1 (Physcomitrella patens), 5'ss of exon 12
CAGAGGACACAAAAATGAAAAGAACTTTGTTGGCTTGTCTGTGAACAATGAATATATTGCTTGTGGAAGTGAGACAAATGAGGTTTTTGTTTATCACAAGgtaatggcaagcttctgtcctggtcatgttcccatgcagcatgcattgttatgatgtgtgactcaatataatcaatcagatgggttcctaactctacactgattgcag
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AAAAGGTCACACCAATGAAAAGAATTTTGTTGGACTTACTGTCAACAGTGAGTATATCGCCTGTGGCAGTGAAACAAACGAGGTGTTTGTGTATCACAAGgtaacattctgcttgaa-cagagtgttaatattttgtgacttgctgtggatgactattggactttggatg-tcaaaaggaaaggacttaaggtgaatttttt------
upper sequence: GRMZM2G104920_T03 (Zea mays), 5'ss of exon 12
lower sequence: PP1S81_234V6.1 (Physcomitrella patens), 5'ss of exon 11
CAGAGGACACAAAAATGAAAAGAACTTTGTTGGCTTGTCTGTGAACAATGAATATATTGCTTGTGGAAGTGAGACAAATGAGGTTTTTGTTTATCACAAGgtaatggcaagcttctgtcctggtcatgttcccatgcagcatgcattgttatgatgtgtgactcaatataatcaatcagatgggtt-cctaactcta-cactgattgcag-
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GAGAGGACACACGAATGAGAAGAACTTTGTGGGACTGACTGTCAACAGTGAATATGTTGCTTGCGGTAGTGAATCGAACGAGGTCTTTGTGTATCATAAGgtattggctggcc----ctccgaacttat-ctcatgca-tttgtctgcttaacactt-----ccaacattattcatcaattcagtcacctgactctttcagggcttatgtg
upper sequence: GRMZM2G104920_T03 (Zea mays), 5'ss of exon 12
lower sequence: PP1S135_17V6.1 (Physcomitrella patens), 5'ss of exon 12
CAGAGGACACAAAAATGAAAAGAACTTTGTTGGCTTGTCTGTGAACAATGAATATATTGCTTGTGGAAGTGAGACAAATGAGGTTTTTGTTTATCACAAGgtaatggcaagcttctgtcctggtcatgttcccatgcagcatgcattgttatgatgtgtgactcaatataatcaatcagatgggttcctaactctacactgattgcag
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GAAAGGACACACCAATGAAAAGAACTTTGTTGGATTGACTGTCAACAGCGAATACATCGCCTGTGGCAGTGAAACGAACGAGGTGTTTGTGTATCATAAGgtattgtcctgattgta---tgttctggttttaatttagaatttac-atgacgtttcgtgttttttagaactcggttt--tgtatacatgaggcaaagtgaaattt--Mapped 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|211130495|gb|FK982392.1|FK982392EST: AATATATTGCTTGTGGAAGTGAGACAAATGAGGTTTTTGTTTATCACAAG GCTATCTCGAAACCGGCAGCAAGCCATAGATTTGTATCTTCTGACCCGGAT
genomic: AATATATTGCTTGTGGAAGTGAGACAAATGAGGTTTTTGTTTATCACAAGgtaatggcaa ... ctgattgcagGCTATCTCGAAACCGGCAGCAAGCCATAGATTTGTATCTTCTGACCTGGAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CAGAGGACACAAAAATGAAAAGAACTTTGTTGGCTTGTCTGTGAACAATGAATATATTGCTTGTGGAAGTGAGACAAATGAGGTTTTTGTTTATCACAAGgtaatggcaagcttctgtcctggtcatgttcccatgcagcatgcattgttatgatgtgtgactcaatataatcaatcagatgggttcctaactctacactgattgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG