Sequence
atgc intronic sequence ATGC exonic sequence...tgctagattctattgtgacactttgaatgtcattttctggatacctgaatataattttttaaggtctgacggtagccattctttcaatttgagcttgcagACAGTAGATGAGATCTACAAGGTTGCATCAATAGTACTGAGTCCGAATGTTCCCGGGCAAATCTTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM5G840582_T01 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os07g01760.1 (Oryza sativa), 3'ss of exon 7
--------tgctagattctattgtgacactttgaatgtcattttctggatacc-tgaatataattttttaaggtctgacggtagccattctttcaatttgagcttgcagACAGTAGATGAGATCTACAAGGTTGCATCAATAGTACTGAGTCCGAATGTTCCCGGGCAAATCTTT
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tcatgtaatgtaagattttactttga-agtttggatagtagcac--agataccatttttctgtttgcttgtgatctaattacgttcctcatttca-tatga-----cagACAGTAGACGAGATCTACAAGGTTGCATCAATCGCACTCAGTCCAAATGTTCCTGGGCAGATCTTT
upper sequence: GRMZM5G840582_T01 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA01G03260.3 (Glycine max), 3'ss of exon 9
---tgctagattctattgtgacactttgaatgtcattttctggatacctgaatataattttttaaggtctgacggtagccattctttc-aatttgagcttgcagACAGTAGATGAGATCTACAAGGTTGCATCAATAGTACTGAGTCCGAATGTTCCCGGGCAAATCTTT
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tgactctacatgtaaggtgttcatacaaattgtcacctcttcaatttttgcaacagctacactga----cgacgtttttcttttatcctgattttcttttgcagACAGTTGATGAGATCTACAAGGTTGCATCAATATCACTTAGTCCAAATGTTCCAGCACAAATATTT
upper sequence: GRMZM5G840582_T01 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA02G04320.2 (Glycine max), 3'ss of exon 9
---tgctagattctattgtgacactttgaatgtcattttctggatacctgaatataattttttaaggtctgacggtagccattctttc-aatttgagcttgcagACAGTAGATGAGATCTACAAGGTTGCATCAATAGTACTGAGTCCGAATGTTCCCGGGCAAATCTTT
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tgactctacatgtaaggtgttcatacaaattgtcacctcttcaatttttgc-tatagcttcactga---tgatgcttttcttttatcctgattttcttttgcagACAGTTGATGAGATCTACAAGGTTGCATCAATATCACTTAGTCCAAATGTTCCAGCACAAATATTT
upper sequence: GRMZM5G840582_T01 (Zea mays), 3'ss of exon 8
lower sequence: Vv00s0225g00130.t01 (Vitis vinifera), 3'ss of exon 9
----tgctagattctattgtgacactttgaatgtcattttctggatacctgaatataattttttaaggtctgacggtagccattctttcaatttgagcttgcagACAGTAGATGAGATCTACAAGGTTGCATCAATAGTACTGAGTCCGAATGTTCCCGGGCAAATCTTT
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ttattgttggaaaatgaaattcaagcacaattgaaattccttctattc----aaacagtgtttaaacaattggtgctaatttggatcatcaaatgatgttgcagACTGTTGATGAGATTTATAAGGTTGCATCAATATCACTCAGTCCAAATGTCCCTGGGCAGATATTTMapped 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|7216933|gb|AW563070.1|AW563070EST: AGTGTGGACAACGTGGTGGATACTTCGAAATGACAAATCTTCCTCCAAAG ACAGTAGATGAGATATACAAGGTTGCATCAATAGTACTGAGTCCGAATGTT
genomic: AGTGTGGACAACGTGGTGGATACTTCGAAATGACAAATCTTCCTCCAAAGgtatttgtta ... gagcttgcagACAGTAGATGAGATCTACAAGGTTGCATCAATAGTACTGAGTCCGAATGTT
EST:
gi|32850940|gb|CD990621.1|CD990621EST: AGTGTGGACAACGTGGTGGATACTTCGAAATGACAAATCTTCCTCCAAAG ACAGTAGATGAGATCTACAAGGTTGCATCAATAGTACTGAGTCCGAATGTT
genomic: AGTGTGGACAACGTGGTGGATACTTCGAAATGACAAATCTTCCTCCAAAGgtatttgtta ... gagcttgcagACAGTAGATGAGATCTACAAGGTTGCATCAATAGTACTGAGTCCGAATGTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgaatataattttttaaggtctgacggtagccattctttcaatttgagcttgcagACAGTAGATGAGATCTACAAGGTTGCATCAATAGTACTGAGTCCGAATGTTCCCGGGCAAATCTTT
gtctgac putative branch site (score: 3)
ataattttttaaggt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgctagattctattgtgacactttgaatgtcattttctggatacctgaatataattttttaaggtctgacggtagccattctttcaatttgagcttgcagACAGTAGATGAGATCTACAAGGTTGCATCAATAGTACTGAGTCCGAATGTTCCCGGGCAAATCTTT
- - - - - - - - - - - ttgaatg
- - - - - - - - - - - - - - - - ttttctg
- - - - - - - - - - - - - - - - - - - - - acctgaa