Sequence
atgc intronic sequence ATGC exonic sequence...ttgttgaagttcttttccttttgttaggctatctaatatcgtaacattgatcccccccccccccccccctatttccctctaacgtatgcaattctggcagTGGTTTCTGAGGGACTTGACAGGAATGCTTGGAGGGATATTGTTCACCTTTTACCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM5G846548_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os03g11500.1 (Oryza sativa), 3'ss of exon 5
ttgttgaagttcttttccttttgttaggctatctaatatcgtaacattgatcccccccccccccccccctatttccctctaacgtatgcaattctggcagTGGTTTCTGAGGGACTTGACAGGAATGCTTGGAGGGATATTGTTCACCTTTTACCAG
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tgctctgcagtctagtatgtgttttcccccctcaattttcttcttttatgggcttagtttcaatttcctcatcatctttaattacatgctattcttgcagTGGTTTCTCAGGGATTTGACAGGAATGCTCGGTGGTATACTGTTCACTTTTTATCAG
upper sequence: GRMZM5G846548_T01 (Zea mays), 3'ss of exon 5
lower sequence: AT1G13770.2 (Arabidopsis thaliana), 3'ss of exon 4
ttgttgaagttcttttccttttgttaggctatctaatatcgtaacattgatccccccccccccccc----ccctatt--------tccctctaacgtatgcaattctggcagTGGTTTCTGAGGGACTTGACAGGAATGCTTGGAGGGATATTGTTCACCTTTTACCAG
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------gtgagtttttccattgctta---catataacatt-tcacactagttctctcaagaactataaagcgcaatggagaatagtgattctatcttgtgta--ttatgcagTGGTTTCTGAGGGATTTTACTGGGATGCTTGGAGGTATATTGTTCACATTTTATCAG
upper sequence: GRMZM5G846548_T01 (Zea mays), 3'ss of exon 5
lower sequence: Vv01s0011g00500.t01 (Vitis vinifera), 3'ss of exon 5
---------------------------------ttgttgaagttctt---ttccttttgttaggctatctaatatcgtaacattgatcccccccccccccccccctatttccctctaacgtatgcaattctggcagTGGTTTCTGAGGGACTTGACAGGAATGCTTGGAGGGATATTGTTCACCTTTTACCAG
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gtaaactttatgcatgctagaagctctccaaatctcaagtagtttggagacagctttcttaagtttacttgagataatt-tacttatggctacaacttacattaacaataggttcttaatactgaaactgtggcagTGGTTTTTGAGGGACCTAACTGGAATGCTTGGAGGAATTTTATTCACTTTTTACCAGMapped 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|88755251|gb|DY539392.1|DY539392EST: CAATCGGAGTGGGGGAACAGTCCGCAACTGTCATAGGTGCTACTTTTCAG TGGTTTCTGAGGGACTTGACAGGAATGCTTGGAGGGATATTGTTCACCTTT
genomic: CAATCGGAGTGGGGGAACAGTCCGCAACTGTCATAGGTGCTACTTTTCAGgtagatgttg ... attctggcagTGGTTTCTGAGGGACTTGACAGGAATGCTTGGAGGGATATTGTTCACCTTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attgatcccccccccccccccccctatttccctctaacgtatgcaattctggcagTGGTTTCTGAGGGACTTGACAGGAATGCTTGGAGGGATATTGTTCACCTTTTACCAG
ctctaac putative branch site (score: 2)
tattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgttgaagttcttttccttttgttaggctatctaatatcgtaacattgatcccccccccccccccccctatttccctctaacgtatgcaattctggcagTGGTTTCTGAGGGACTTGACAGGAATGCTTGGAGGGATATTGTTCACCTTTTACCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG