Sequence
atgc intronic sequence ATGC exonic sequencegttatattcgcacatgtccattccttgcattgtgctttcatcacataatatttcatgtaacatttatcaacttatattttgttttagGCTGGTGATCTTATAGCAAGGTTGGATCTTGATGACCCTTCTGCTGTGAAAAGAGCTGAGCCATTTGATGGAATATTTCCACAAATGGAGCTCCCTGTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM5G858094_T01 (Zea mays), 3'ss of exon 19
lower sequence: LOC_Os05g22940.1 (Oryza sativa), 3'ss of exon 21
gttatattcgcacatgtccattccttgcattgtgctttcatcacataatatttcatgtaacatttatcaacttatattttgttttagGCTGGTGATCTTATAGCAAGGTTGGATCTTGATGACCCTTCTGCTGTGAAAAGAGCTGAGCCATTTGATGGAATATTTCCACAAATGGAGCTCCCTGTTG
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-gtacattcctacat-tccattcattgtgctgtgctgacatga----acatttcaagtaaatacctgtaacttgtttattattctagGCTGGTGATCTTATAGCTAGGCTGGATCTTGATGACCCTTCTGCTGTTAAGAGAGCTGAGCCGTTCGAAGATACTTTTCCACAAATGGGTCTCCCTATTG
upper sequence: GRMZM5G858094_T01 (Zea mays), 3'ss of exon 19
lower sequence: GLYMA04G11550.1 (Glycine max), 3'ss of exon 18
gttatattcgcacatgtccattccttgcattgtgctttcatcacataatatttcatgtaacatttatcaacttatattttgtttt--agGCTGGTGATCTTATAGCAAGGTTGGATCTTGATGACCCTTCTGCTGTGAAAAGAGCTGAGCCATTTGATGGAATATTTCCACAAATGGAGCTCCCTGTTG
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---gtatata-gcat-tctattcc--acataggaagtacaattgttgaaattgaaaaagata---ataaaattgtatcaccttttgcagGCTGGTGAACTTATAGCAAGGCTTGATCTGGATGATCCTTCAGCTGTAAGAAAGGCAGAACCCTTCACTGGGAGCTTCCCAGTCCTGGGACCTCCTACCG
upper sequence: GRMZM5G858094_T01 (Zea mays), 3'ss of exon 19
lower sequence: GLYMA06G11120.1 (Glycine max), 3'ss of exon 18
gttatattcgcacatgtccattccttgcattgtgctttcatcacataatatttcatgtaacatttatcaacttatattttgttttagGCTGGTGATCTTATAGCAAGGTTGGATCTTGATGACCCTTCTGCTGTGAAAAGAGCTGAGCCATTTGATGGAATATTTCCACAAATGGAGCTCCCTGTTG
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---gtatata-gcat-tctattcc--acattggaagtacaggtgttcatattgaaagagataataaaatagtatcactgt-ttgcagGCTGGTGAACTTATAGCAAGGCTTGATCTGGATGATCCTTCAGCTGTAAGAAAGGCAGAACCCTTCACTGGGAGCTTCCCAGTTCTGGGACCTCCTACTG
upper sequence: GRMZM5G858094_T01 (Zea mays), 3'ss of exon 19
lower sequence: Vv18s0001g04980.t01 (Vitis vinifera), 3'ss of exon 19
gttatattcgcacatgtccattccttgcattgtgctttcatcacataatatttcatgtaacatttatcaacttatattttgttttagGCTGGTGATCTTATAGCAAGGTTGGATCTTGATGACCCTTCTGCTGTGAAAAGAGCTGAGCCATTTGATGGAATATTTCCACAAATGGAGCTCCCTGTTG
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---------gtaaa-atatgttccatattggaagttttagt---atcctatccttggtagagattaagaaatcacattttgtgt-agGCTGGTGAGCTTATAGCAAGACTTGATCTAGATGATCCTTCTGCTGTAAGGAAAGCAGAGCCTTTCCATGGGAGCTTTCCAATTTTAGGGCCTCCCACTGMapped 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|32803950|gb|CD956186.1|CD956186EST: CTGCTTCTGGTGTCATTCATTGTATGATGTCTGAGGGCCAGGCATTGCAG GCTGGTGATCTTATAGCAAGGTTGGATC
genomic: CTGCTTCTGGTGTCATTCATTGTATGATGTCTGAGGGCCAGGCATTGCAGgttatattcg ... tttgttttagGCTGGTGATCTTATAGCAAGGTTGGATC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgctttcatcacataatatttcatgtaacatttatcaacttatattttgttttagGCTGGTGATCTTATAGCAAGGTTGGATCTTGATGACCCTTCTGCTGTGAAAAGAGCTGAGCCATTTGATGGAATATTTCCACAAATGGAGCTCCCTGTTG
atgtaac putative branch site (score: 3)
ttttgtttt putative PPT
ataatatttcatgtaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttatattcgcacatgtccattccttgcattgtgctttcatcacataatatttcatgtaacatttatcaacttatattttgttttagGCTGGTGATCTTATAGCAAGGTTGGATCTTGATGACCCTTCTGCTGTGAAAAGAGCTGAGCCATTTGATGGAATATTTCCACAAATGGAGCTCCCTGTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT