Sequence
atgc intronic sequence ATGC exonic sequence...cacactgcctattaagtcttgacctgtgttttggctttttgtcacaaacattgtttagttacttagttccaatggtataatggcatttatgcacatgcagATAGATACCAAAGATATTCTTTTTATATGTGGTGGTGCTTTCGTGGATTTGGAAAAAACTATATCAGAGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G050186_T05 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os02g35630.1 (Oryza sativa), 3'ss of exon 8
cacactgcctattaag-tcttga-cctgtgttttggctt-tttgtcacaaacattgtttagttac---ttagttccaatggtataatggcatttatgcacatgcagATAGATACCAAAGATATTCTTTTTATATGTGGTGGTGCTTTCGTGGATTTGGAAAAAACTATATCAGAGAG
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-----tgcccagtaaaaccttgagtttgtttttctactcgttcagtgcttgtggtatgcacacatggattaacttcaattgtataatggtcttcatgc-catacagATAGATACAAAGGACATTCTTTTTATTTGTGGTGGTGCTTTTATTGACTTGGAGAAAACTATATCAGAGAG
upper sequence: GRMZM2G050186_T05 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA16G33080.1 (Glycine max), 3'ss of exon 9
cacactgcctattaagtcttgacctgtgttttggctttttgtcacaaaca-ttgtttagttacttagttccaatggtataatggcatttatgcacatgcagATAGATACCAAAGATATTCTTTTTATATGTGGTGGTGCTTTCGTGGATTTGGAAAAAACTATATCAGAGAG
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agcttcagtcgcctagtggctagtacagtttacgtataactctagaaacacttgttaagtttttcaataatcttccatttattttttttat-cttatgcagATGGACACAAAAAATATTCTTTTTATATGTGGTGGAGCATTTATTGATCTTGAAAAAACCATTTCGGAGAG
upper sequence: GRMZM2G050186_T05 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA09G28260.1 (Glycine max), 3'ss of exon 9
--cacactgcctattaagtcttgacctgtgttttggctttttgtcacaaacattgtttagttacttagttccaatggtataatggcat-ttatgcacatgcagATAGATACCAAAGATATTCTTTTTATATGTGGTGGTGCTTTCGTGGATTTGGAAAAAACTATATCAGAGAG
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ccagcttcagtcacctagtggctactacagtttaaatataactctagcaacacttgtaattttttcaat---aatcttccatttatttatttttcttatgcagATGGACACAAAAAATATTCTTTTTATATGTGGTGGAGCATTTATTGATCTTGAAAAAACCATTTCGGAGAG
upper sequence: GRMZM2G050186_T05 (Zea mays), 3'ss of exon 8
lower sequence: Vv18s0089g01240.t01 (Vitis vinifera), 3'ss of exon 8
cacactgcct-attaagtcttgacctgtgttttggctttttgtcacaaacattgtttagttacttagttccaatggtataatggcatttatgcacat-gcagATAGATACCAAAGATATTCTTTTTATATGTGGTGGTGCTTTCGTGGATTTGGAAAAAACTATATCAGAGAG
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-attttccttcatctgattactatcaattctacatcattatttcatgatagctgttgctttgct-aatttcgttctaataattacattttaatgaattgcagATAGATACAAAAGATATCCTTTTTATATGTGGTGGAGCATTTGTTGATTTAGAAAAAACCATTTCAGATAG
upper sequence: GRMZM2G050186_T05 (Zea mays), 3'ss of exon 8
lower sequence: PP1S171_84V6.1 (Physcomitrella patens), 3'ss of exon 8
cacactgcctattaagtcttgacctgtgttttggct--ttttgtcaca-aacattgtttagttacttagttccaatggtataatggcatttatgcacatgcagATAGATACCAAAGATATTCTTTTTATATGTGGTGGTGCTTTCGTGGATTTGGAAAAAACTATATCAGAGAG
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catggtgggtttctatacccaggttatgtcttctctgctatcgtaacatggcagcatctattt---tggctagacatttacctgagcagtgtaagttatgcagATTGATACCAAGGATATTCTTTTCATATGTGGAGGTGCTTTTATCGAACTTGCGAAAACTGTTGCAGAGCG
upper sequence: GRMZM2G050186_T05 (Zea mays), 3'ss of exon 8
lower sequence: PP1S98_222V6.1 (Physcomitrella patens), 3'ss of exon 9
-cacactgcctat-taagtcttgacctgtgttttggctttttgtcacaaacattgtttagttacttagttccaatggtataatggcatttatgcacatgcagATAGATACCAAAGATATTCTTTTTATATGTGGTGGTGCTTTCGTGGATTTGGAAAAAACTATATCAGAGAG
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gagcaattcaaatgtatgttatggtctg-gtctcttcattatctttcag-tgtaagctcctactttggttgtatatttctgtgaacagttaagtttgtgcagATTGATACCAAAGACATTCTTTTCATATGTGGAGGTGCTTTCGTTGAATTGGAGAAGAGCATTGCAGAAAGMapped 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|9028559|gb|BE238554.1|BE238554EST: ACGTTCCTGAGAAAGGAGCAAGGAAGCATCCTCGTGGTGATAATATACAG ATAGATACCAAAGATATTCTTTTTATATGTGGTGGTGCTTTCGTGGATTTG
genomic: ACGTTCCTGAGAAAGGAGCAAGGAAGCATCCTCGTGGTGATAATATACAGgtaaagtttg ... gcacatgcagATAGATACCAAAGATATTCTTTTTATATGTGGTGGTGCTTTCGTGGATTTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaacattgtttagttacttagttccaatggtataatggcatttatgcacatgcagATAGATACCAAAGATATTCTTTTTATATGTGGTGGTGCTTTCGTGGATTTGGAAAAAACTATATCAGAGAG
tttagtta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cacactgcctattaagtcttgacctgtgttttggctttttgtcacaaacattgtttagttacttagttccaatggtataatggcatttatgcacatgcagATAGATACCAAAGATATTCTTTTTATATGTGGTGGTGCTTTCGTGGATTTGGAAAAAACTATATCAGAGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG