Sequence
atgc intronic sequence ATGC exonic sequencegtaaaccatctacatttgttatcctacatttttctgtgatatattttggtgaatttcctcaataactcatggtgtggtttgtttacttctgcataatcgtagtcggagacgctataaccaattttctccccttgctgttcagGGTCAAATGTTGACGATTGTGGAATATTTTCTACTTTTGTATCGTGCATTATTGCCTACACCTGTGTGGTACCGTTTTTTCCTGAACAAGGAGTATGGAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G141216_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os01g07390.1 (Oryza sativa), 3'ss of exon 4
gtaaaccatcta--catttgttatcctacatttttctgtgatatattttggtgaat--ttcctcaataactcatggtgtggt-ttgtttacttctgcataatcgtagtcggagacgctataaccaattttctccccttgctgttcagGGTCAAATGTTGACGATTGTGGAATATTTTCTACTTTTGTATCGTGCATTATTGCCTACACCTGTGTGGTACCGTTTTTTCCTGAACAAGGAGTATGGAA
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gtatgctgtttatgcatttga-atactatatttt-ctgtgatctatcattgtgtgccgtttcctgatagcttcaggtgcagtgttatttgtttctg-acaacca--------------gtaatcaatcattcctttttgct---cagGGCCAAATGTTAACAGTTGTGGAATATTTTCTACTTCTGTACCGAGCATTATTGCCTGCTCCTGTATGGTACCGATTTTTCCTGAACAAGGAGTATGGAA
upper sequence: GRMZM2G141216_T02 (Zea mays), 3'ss of exon 4
lower sequence: Vv08s0056g00440.t01 (Vitis vinifera), 3'ss of exon 4
gtaaaccatctacatttgttatcctacatttttctgtgatatattttggtgaatttcctcaataactcatggtgtggtttgtttacttctgcataatcgtagtcggagacgctataaccaattttctccccttgctgttcagGGTCAAATGTTGACGATTGTGGAATATTTTCTACTTTTGTATCGTGCATTATTGCCTACACCTGTGTGGTACCGTTTTTTCCTGAACAAGGAGTATGGAA
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--------------------gtaaggtaatatgaaattatgtgttaaagtagatttattta---------ggttagtatcatttgcatttatattctttttgtctgccattacaca-ctgactccagacatttattttccagGGTCAACTGCTAACTTTGGTTGAATATACATTACTGTTGTATCGTGCCTTGTTGCCAGCACCTGTCTGGTATCGTTTTTTCTTGAACAAAGAATATGGGAMapped 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|74237584|gb|DT645498.1|DT645498EST: TACTGCTGATGTACTATAAGAACAGCAGAGGGCGTAGCTATCGTAGGCAG GGTCAAATGTTGACGATTGTGGAATATTTTCTACTTTTGTATCGTGCATTA
genomic: TACTGCTGATGTACTATAAGAACAGCAGAGGGCGTAGCTATCGTAGGCAGgtaaaccatc ... tgctgttcagGGTCAAATGTTGACGATTGTGGAATATTTTCTACTTTTGTATCGTGCATTA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctgcataatcgtagtcggagacgctataaccaattttctccccttgctgttcagGGTCAAATGTTGACGATTGTGGAATATTTTCTACTTTTGTATCGTGCATTATTGCCTACACCTGTGTGGTACCGTTTTTTCCTGAACAAGGAGTATGGAA
ctataac putative branch site (score: 3)
ttttctccccttgctg putative PPT
aattttct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaaccatctacatttgttatcctacatttttctgtgatatattttggtgaatttcctcaataactcatggtgtggtttgtttacttctgcataatcgtagtcggagacgctataaccaattttctccccttgctgttcagGGTCAAATGTTGACGATTGTGGAATATTTTCTACTTTTGTATCGTGCATTATTGCCTACACCTGTGTGGTACCGTTTTTTCCTGAACAAGGAGTATGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG