Sequence
atgc intronic sequence ATGC exonic sequence...ttgggctggacatattatactgaaacacatctcttatatagaccttatttgtgcatctgttgttgttacaagtgtttaattcgaactcacttttatgtagGATTTGGTTAAGAAGTACTCTGAGTTCATCAACTTCCCTATCTATTTGTGGTCAACCAAGGAGGTTGATGTTGAAGTGCCAGCTGATGAGGATGAGACAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G399073_T03 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os06g50300.1 (Oryza sativa), 3'ss of exon 7
-ttgggctggacatattatactgaaacacatctcttatatagaccttatttgtgcatc-tgttgttgttacaagtgtttaattcgaac---tcacttttatgtagGATTTGGTTAAGAAGTACTCTGAGTTCATCAACTTCCCTATCTATTTGTGGTCAACCAAGGAGGTTGATGTTGAAGTGCCAGCTGATGAGGATGAGACAA
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attttgctg--catagt---ctggcaaatttctgttgaatagctgctattgagacattatacaaagaaaataacttactatcttgaacatttcatggtcttgcagGATTTGGTGAAGAAGTACTCTGAGTTCATCAATTTCCCCATTTACTTGTGGGCAACCAAGGAGGTTGATGTGGAAGTGCCAGCTGATGAGGATGAGTCAA
upper sequence: GRMZM2G399073_T03 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA14G40320.4 (Glycine max), 3'ss of exon 7
-----ttgggctggacatattatactgaaacacatctcttatatagaccttatttgtgcatctgttgttgttacaagtgtttaattcgaactcacttttatgtagGATTTGGTTAAGAAGTACTCTGAGTTCATCAACTTCCCTATCTATTTGTGGTCAACCAAGGAGGTTGATGTTGAAGTGCCAGCTGATGAGGATGAGACAA
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aaatctcaattaatatacattttttttgtcaatatctattctcaatataaaagaagccaacctcttgt-ataatatg-atttaac---aactatgtttttcacagGAATTGGTGAAGAGATACTCTGAATTTATTAACTTCCCTATCTATATTTGGGCAAGCAAAGAAGTTGATGTGGAGGTTCCCGCTGATGAAGATGATTCCA
upper sequence: GRMZM2G399073_T03 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA17G37820.1 (Glycine max), 3'ss of exon 7
-------ttgggctggacatattatactgaaacacatctcttatatagaccttatttgtgcatctgttgttgttacaagtgtttaattcgaactcacttttatgtagGATTTGGTTAAGAAGTACTCTGAGTTCATCAACTTCCCTATCTATTTGTGGTCAACCAAGGAGGTTGATGTTGAAGTGCCAGCTGATGAGGATGAGACAA
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ataaaactcatttaatatacgtttttttgtca-atatctactctcaatatgaaagacgtcaatctcttgcta--aatatgatttaac---aactatttttttcacaGGAATTGGTGAAGAGATACTCTGAATTTATTAACTTCCCTATCTATATTTGGGCAAGCAAAGAGGTTGATGTGGAGGTTCCCGCTGATGAAGATGATTCC-
upper sequence: GRMZM2G399073_T03 (Zea mays), 3'ss of exon 7
lower sequence: PP1S126_38V6.1 (Physcomitrella patens), 3'ss of exon 7
ttgggctggacatattatactgaaacacatctcttatata-----gaccttatttgtgcatctgttgttgttacaagtgtttaattcgaac--tcacttttatgtagGATTTGGTTAAGAAGTACTCTGAGTTCATCAACTTCCCTATCTATTTGTGGTCAACCAAGGAGGTTGATGTTGAAGTGCCAGCTGATGAGGATGAGACAA
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-------tgacttttaattgaggaagtaactttctggaggtaagggactaaataggtggcagtgtttttaattttacagtctaattctgttgataatttgagtgcagGAACTCGTGAAGAAGTATTCTGAATTCATCAGCTTCCCTATTTACCTGTGGGCTAGCAAAGAGGTTGATGTTGAAGTGCCCGTTGAAGAGGCCGAAGAGAMapped 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|149004856|gb|EE039364.2|EE039364EST: TACATCTGCGAGATGAGGCCAAGGAGTACTTGGAAGAGGATAAGCTTAAG GATTTGGTTAAGAAGTACTCTGAGTTCATCAACTTCCCTATCTATTT
genomic: TACATCTGCGAGATGAGGCCAAGGAGTACTTGGAAGAGGATAAGCTTAAGgtattgccat ... ttttatgtagGATTTGGTTAAGAAGTACTCTGAGTTCATCAACTTCCCTATCTATTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatttgtgcatctgttgttgttacaagtgtttaattcgaactcacttttatgtagGATTTGGTTAAGAAGTACTCTGAGTTCATCAACTTCCCTATCTATTTGTGGTCAACCAAGGAGGTTGATGTTGAAGTGCCAGCTGATGAGGATGAGACAA
aactcac putative branch site (score: 2)
ctcactttt CT-rich tract
tgtttaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgggctggacatattatactgaaacacatctcttatatagaccttatttgtgcatctgttgttgttacaagtgtttaattcgaactcacttttatgtagGATTTGGTTAAGAAGTACTCTGAGTTCATCAACTTCCCTATCTATTTGTGGTCAACCAAGGAGGTTGATGTTGAAGTGCCAGCTGATGAGGATGAGACAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG