Sequence
atgc intronic sequence ATGC exonic sequencegtgcatttcgtttgctctgaatttaatccttgctcttgtgagtacttttgcaatatctgactccctgcttttcagATGATCAAGCTGTAGAGGAACAAGGGGAAGGCATTGTGCTGGGAAGTGTCCCTACATACCCTTGGGAGGGAACTGATCGGGATTATAAATATGAAGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G080048_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os07g48300.1 (Oryza sativa), 3'ss of exon 5
gtgcatttcgtttgctctgaatttaatccttgctcttgtgagtac---ttttgcaatatctgactccctgcttttcagATGATCAAGCTGTAGAGGA---ACAAGGGGAAGGCATTGTGCTGGGAAGTGTCCCTACATACCCTTGGGAGGGAACTGATCGGGATTATAAATATGAAGAG
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--gtataggattaatccttgatta----cttactcttgacagtttattctttgtccttactgactcc-tgctttccagATGACCAAGTTGTAGAGGAGGAAGAAGGGGAAGGAATTGTGCTTGGAGGTGCCCCTAGGTACCCGTGGGAGGGAACTGATAGGGACTACAATTATGATGA-
upper sequence: GRMZM2G080048_T01 (Zea mays), 3'ss of exon 4
lower sequence: PP1S280_23V6.1 (Physcomitrella patens), 3'ss of exon 3
-----------------gtgcatttcgtttg----------ctctgaatttaatccttgctcttgtgagtacttttgcaatatctgactccctgctt----ttcagATGATCAAGCTGTAGAGGAACAAGGGGAAGGCATTGTGCTGGGAAGTGTCCCTACATACCCTTGGGAGGGAACTGATCGGGATTATAAATATGAAGAG
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ttcgtatttaggtgtggatgcgtttcactcgaaatcttcgtctatgagcatggcaaccactattaaaattctaatttcaagactctgatacctgatacagATCTCGGTGAGGTGGATGACGAAGAACCTGCTGTGGGTATCGAACTGGGAGTTG---CTGTCTATCCTTGGGAAGGAACAGATCGGGATTATAAGTATGAAGA-Mapped 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|6194479|gb|AW146583.1|AW146583EST: GGATCTTGATTCAACTCTTGATGAGCTTGGAGATGGGGAAGACACTCAAG ATGATCAAGCTGTAGAGGAACAAGGGGAAGGCATTGTGCTGGGAAGTGTCC
genomic: GGATCTTGATTCAACTCTTGATGAGCTTGGAGATGGGGAGGACACTCAAGgtgcatttcg ... tgcttttcagATGATCAAGCTGTAGAGGAACAAGGGGAAGGCATTGTGCTGGGAAGTGTCC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttaatccttgctcttgtgagtacttttgcaatatctgactccctgcttttcagATGATCAAGCTGTAGAGGAACAAGGGGAAGGCATTGTGCTGGGAAGTGTCCCTACATACCCTTGGGAGGGAACTGATCGGGATTATAAATATGAAGAG
atctgac putative branch site (score: 3)
ctccctgcttttc CT-rich tract
tactttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgcatttcgtttgctctgaatttaatccttgctcttgtgagtacttttgcaatatctgactccctgcttttcagATGATCAAGCTGTAGAGGAACAAGGGGAAGGCATTGTGCTGGGAAGTGTCCCTACATACCCTTGGGAGGGAACTGATCGGGATTATAAATATGAAGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA