Sequence
atgc intronic sequence ATGC exonic sequence...tgcacattcaaatccagtgtttcttttcaatcacatagtgaactaaaacactctcatcactcagtgatatttgattttatccacatgccacttgcagcagTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACCGGAATGGTCAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G067985_T04 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os05g01600.2 (Oryza sativa), 3'ss of exon 1
tgcacattcaaatccagtgtttcttttcaatcacatagtgaactaaaacactctcatcactcagtgatatttgattttatccacatgccacttgcagcagTTCTGTAG-AAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACCGGAATGGTCAAG
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--atgatttagttgaagaaatgcgtcgtcgtcgagttgtatagcaacaa----tgatcaggcactactacttg--ttaaagtattaactctctgcagctcttctgtagGAAATGGCTGACGGTGAGGACATCCAGCCTCTTGTCTGTGACAATGGCACTGGAATGGTCAAG
upper sequence: GRMZM2G067985_T04 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os05g01600.1 (Oryza sativa), 3'ss of exon 1
--tgcacattca-aatccagt-gtttcttttcaatcacatagtgaactaaaaca-ctctcatcactcagtgatatttgattttatccacatgccacttgcagcagTTCTGTAG-AAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACCGGAATGGTCAAG
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agtactcatcaatgatttagttgaagaaatgcgtcgtcgtcgagttgtatagcaacaatgatcaggcactactacttg--ttaaagtattaactctctgcagCTCTTCTGTAGGAAATGGCTGACGGTGAGGACATCCAGCCTCTTGTCTGTGACAATGGCACTGGAATGGTCAAG
upper sequence: GRMZM2G067985_T04 (Zea mays), 3'ss of exon 1
lower sequence: AT5G09810.1 (Arabidopsis thaliana), 3'ss of exon 1
tgcacattcaaatccagtgtttcttttcaatcacatagtgaactaaaacactctcatcactcagtgatatttgattttatccacatgccacttgcagcagTTCTGT--AGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACCGGAATGGTCAAG
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------aataaacgctgctaatcttcgaaactaagttgtgatctgattcgtgtttacttcatgagcttatccaattcatttcggtttcattttactttttttttagTGAAAAATGGCCGATGGTGAGGATATTCAGCCACTTGTCTGTGACAATGGAACTGGAATGGTGAAG
upper sequence: GRMZM2G067985_T04 (Zea mays), 3'ss of exon 1
lower sequence: PP1S372_38V6.1 (Physcomitrella patens), 3'ss of exon 1
---------------------------tgcacattcaaatccagtgtttcttttcaatcacatagtgaactaaaacactctcatcactcagtgatatttgattttatccacatgccacttgcagcagTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACCGGAATGGTCAAG
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atcagtctatcgaatccacctaccaggactaggatcagttgtaatgttcgcctcccttgggataattcatgaaagaagacaaattgtatttcgtgcttagGTGTTGCAAAGTGGTTGAGCAGGTCCAAACTA-AACCATGGCTGATGGTGAGGAAGTCCAGCCTTTGGTGTGCGACAATGGCTCTGGAATGGTTAAG
upper sequence: GRMZM2G067985_T04 (Zea mays), 3'ss of exon 1
lower sequence: PP1S372_38V6.4 (Physcomitrella patens), 3'ss of exon 1
-----tgcacattcaaatccagtgtttcttttcaatcacatagtgaactaaaacactctcatcactcagtgatatttgattttatccacatgccacttgcagcagTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACCGGAATGGTCAAG
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ccaggactaggatcagttgtaatgttcgcctcccttgggataattcatgaaagaagacaaattgtatttcgtgcttaggtgttgcaaagtggttgagcagGTCCAAACTA-AACCATGGCTGATGGTGAGGAAGTCCAGCCTTTGGTGTGCGACAATGGCTCTGGAATGGTTAAG
upper sequence: GRMZM2G067985_T04 (Zea mays), 3'ss of exon 1
lower sequence: PP1S372_38V6.3 (Physcomitrella patens), 3'ss of exon 1
----------------tgcacattcaaatccagtgtttcttttcaatcacatagtgaactaaaacactctcatcactcagtgatatttgattttatccacatgccacttgcagcagTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACCGGAATGGTCAAG
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gaatccacctaccaggactaggatcagttgtaatgttcgcctcccttgggataattcatgaaagaagacaaattgtatttcgtgcttaggtgttgcaaagTGGTTGAGCAGGTCCAAACTA-AACCATGGCTGATGGTGAGGAAGTCCAGCCTTTGGTGTGCGACAATGGCTCTGGAATGGTTAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaacactctcatcactcagtgatatttgattttatccacatgccacttgcagcagTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACCGGAATGGTCAAG
tgatatttgattttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgcacattcaaatccagtgtttcttttcaatcacatagtgaactaaaacactctcatcactcagtgatatttgattttatccacatgccacttgcagcagTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACCGGAATGGTCAAG
- - cattcaa
- - - - - - - - -tgtttct
- - - - - - - - - - - - - - aatcaca
- - - - - - - - - - - - - - - - - - - - aactaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - acatgcc