Sequence
atgc intronic sequence ATGC exonic sequencegtgggttttttgtcacttaaaaagacatcttatatatctttcaagttagatcatttagtgatagagcgctttcatgtcataaccatttcatgtgttacagGTTACAACCTTATTTCACTTGGATCGGCCAATGTATTTACTAGGATATCTTGCAAACCAAAGCCGTGTCTATCTTATTGATAAGCAATTTAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G124886_T01 (Zea mays), 3'ss of exon 15
lower sequence: LOC_Os02g11840.2 (Oryza sativa), 3'ss of exon 6
gtgggt-tttttgtcac-ttaaaaagacatc-ttatatatctttcaagttagatcatttagtgatagagcgctttcatgtcataaccatttcatgtgttacagGTTACAACCTTATTTCACTTGGATCGGCCAATGTATTTACTAGGATATCTTGCAAACCAAAGCCGTGTCTATCTTATTGATAAGCAATTTAA
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gtaagtattttcattatatcaaaaatacattgtcacatatgatttg-gttagacccttaattttcaggg-------gtagtataactattcgatgtattacagGTCACAACCTTATTTCACTTGGATCGGCAAATGTATTTACTGGGATATCTTGCTAACCAAAGCCGTGTCTATCTTATTGACAAGCAATTTAA
upper sequence: GRMZM2G124886_T01 (Zea mays), 3'ss of exon 15
lower sequence: LOC_Os02g11830.2 (Oryza sativa), 3'ss of exon 15
gtgggt-tttttgtcac-ttaaaaagacatcttatatatctttcaagttagatcatttagtgatagagcgctttcatgtcataaccatttcatgtgttacagGTTACAACCTTATTTCACTTGGATCGGCCAATGTATTTACTAGGATATCTTGCAAACCAAAGCCGTGTCTATCTTATTGATAAGCAATTTAA
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gtaagtattttcattatatcaaaaatgcat-tcacatatgatttg-gttagactgttaattttcagag-------gtagtataactattcgatgtattacagGTCACAACCTTATTTCACTTGGATCGGCAAATGTATTTACTGGGATATCTTGCTAACCAAAGCCGTGTCTACCTTATTGACAAGCAATTTAA
upper sequence: GRMZM2G124886_T01 (Zea mays), 3'ss of exon 15
lower sequence: Vv11s0016g04180.t01 (Vitis vinifera), 3'ss of exon 15
gtgggttttttgtcacttaaaaagacatcttatat-atctttcaagttagatcat-ttagtgatagagcgctttcatgtca--taaccatttcatgtgttacagGTTACAACCTTATTTCACTTGGATCGGCCAATGTATTTACTAGGATATCTTGCAAACCAAAGCCGTGTCTATCTTATTGATAAGCAATTTAA
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------------gtataagagagttgattccaggttgtatttctatatatatgatcttcattctaaggtgcagtcatataaattgttaatgtgatg-atttcagGTAACCACCATGTTTCACTTGGACCGGCCTATGTATTTGTTAGGATATCTTGCCAGTCAAAGTCGCGTTTATCTTATAGACAAAGAGTTTAAMapped 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|60337834|gb|DN204807.1|DN204807EST: TTATCTACAACAATTCTTCGTGGCGGCTTAATTACTGCGTAGGAGGAGAG GTTACAACCTTATTTCACTTGGATCGGCCAATGTATTTACTAGGATATCTT
genomic: TTATCTACAACAATTCTTCGTGGCGGCTTAATTACTGCGTAGGAGGAGAGgtgggttttt ... tgtgttacagGTTACAACCTTATTTCACTTGGATCGGCCAATGTATTTACTAGGATATCTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttagatcatttagtgatagagcgctttcatgtcataaccatttcatgtgttacagGTTACAACCTTATTTCACTTGGATCGGCCAATGTATTTACTAGGATATCTTGCAAACCAAAGCCGTGTCTATCTTATTGATAAGCAATTTAA
tcataac putative branch site (score: 2)
tcattta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgggttttttgtcacttaaaaagacatcttatatatctttcaagttagatcatttagtgatagagcgctttcatgtcataaccatttcatgtgttacagGTTACAACCTTATTTCACTTGGATCGGCCAATGTATTTACTAGGATATCTTGCAAACCAAAGCCGTGTCTATCTTATTGATAAGCAATTTAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA