Sequence
atgc intronic sequence ATGC exonic sequence...aacaaatattggtctatttacaaactaaaaactcactgtagaattatgcttgggtaaactttggcattattgatcacctaatgcttttttatatctccagGATCCTGTCCAAAGTAGTGTGACTGTTGGAGTTTCACATTTTGAGAGATGCTCGCTCTGGGTTCAAGTTTTGTATTACCCGTTTTATGGAAGTGGTGGAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G060727_T03 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os02g55010.1 (Oryza sativa), 3'ss of exon 5
aacaaatattggtctatttacaaactaaaaactcac-tgtagaattatgcttgggtaaactttggcattattgatcacctaatgcttttttatatctccagGATCCTGTCCAAAGTAGTGTGACTGTTGGAGTTTCACATTTTGAGAGATGCTCGCTCTGGGTTCAAGTTTTGTATTACCCGTTTTATGGAAGTGGTGGAT
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tatcctcgagtataaaatttcacacgcataattcacatattagatcaaccaactcttattttaatccaccttatgtggaaaatgcctttccat-tctgcagGATCCAGTCCAAAGTAGTGTAACTGTTGGAGTTTCGCACTTTGAGAGATGCTCCCTCTGGGTTCAAGTCTTGTATTACCCATTTTATGGAAGTGGAGGGT
upper sequence: GRMZM2G060727_T03 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os11g07470.1 (Oryza sativa), 3'ss of exon 5
--aacaaatattggtctatttacaaactaaaaactcactgtagaattatgcttgggtaaactttggcattattgatcacctaatgcttttttatatctccagGATCCTGTCCAAAGTAGTGTGACTGTTGGAGTTTCACATTTTGAGAGATGCTCGCTCTGGGTTCAAGTTTTGTATTACCCGTTTTATGGAAGTGGTGGAT
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taaaagggtgatggtagaataatt--ttaacattggattatagatcaactaattcaaaatttaatctattttatgtgtaaaaatgcctttttaattctgcagGATCCAGTCCAAAGTAGTGTAACTGTCGGAGTTTCACATTTTGAGAGATGCTCCCTCTGGGTTCAAGTCTTGTACTACCCATTTGATGGAAGTGTAGGAT
upper sequence: GRMZM2G060727_T03 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA16G06580.1 (Glycine max), 3'ss of exon 5
aacaaatattgg--tctatttacaaactaaaaactcactgtagaattatgctt--gggtaaactttggcattattgatcacctaatgcttttttatatctccagGATCCTGTCCAAAGTAGTGTGACTGTTGGAGTTTCACATTTTGAGAGATGCTCGCTCTGGGTTCAAGTTTTGTATTACCCGTTTTATGGAAGTGGTGGAT
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-acaaatgttgcattctctcttcacac-agcagttctttatcattcttttttttaaaatagattctggatccatgttcctgataatggtcttcca--ttctcagGATCCAGTGTTGTGCAGTGTGACAGTTGGTGTTTCCCACTTTGAAAGATGTGCCCTTTGGGTTCAAGTATTGTATTACCCATTCTATGGTAGTAGTGCTG
upper sequence: GRMZM2G060727_T03 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA19G24980.1 (Glycine max), 3'ss of exon 5
--aacaaatattggtctatttacaaactaaaaactcactgtagaattatgct-tgggtaaactttggcattattgatcacctaatgcttttttatatctccagGATCCTGTCCAAAGTAGTGTGACTGTTGGAGTTTCACATTTTGAGAGATGCTCGCTCTGGGTTCAAGTTTTGTATTACCCGTTTTATGGAAGTGGTGGAT
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attatttgctttgcattgttccttcacacaacagtt-ctttaccattcttctgttaatagattctggatccatgttcctgataata--ttgttccattctcagGATCCAGTGTTGTGCAGTGTGACAGTTGGTGTTTCCCACTTTGAAAGATGTGCTCTTTGGGTTCAAGTATTGTATTACCCATTCTATGGTAGTGGTGCTGMapped 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|76912182|gb|DV164603.1|DV164603EST: TGGATGGTTTCTCTCGGACTGTTCGCCACCTCGGAAATCTTGTTTCCCAG GATCCTGTCCAAAGTAGTGTGACTGTTGGAGTTTCACATTNTGAGAGATGC
genomic: TGGATGGTTTCTCTCGGACTGTTCGCCACCTCGGAAATCTTGTTTCCCAGgtccttataa ... atatctccagGATCCTGTCCAAAGTAGTGTGACTGTTGGAGTTTCACATTTTGAGAGATGC
EST:
gi|91052684|gb|EB163102.1|EB163102EST: GGGATGGTTTCTCTCGGACTGTTCGCCACCTCGGAAATCTTGTTTCCCAG GATCCTGTCCAAAGTAGTGTGACTGTTGGAGTTTCACATTTTGAGAGATGC
genomic: -GGATGGTTTCTCTCGGACTGTTCGCCACCTCGGAAATCTTGTTTCCCAGgtccttataa ... atatctccagGATCCTGTCCAAAGTAGTGTGACTGTTGGAGTTTCACATTTTGAGAGATGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgcttgggtaaactttggcattattgatcacctaatgcttttttatatctccagGATCCTGTCCAAAGTAGTGTGACTGTTGGAGTTTCACATTTTGAGAGATGCTCGCTCTGGGTTCAAGTTTTGTATTACCCGTTTTATGGAAGTGGTGGAT
acctaat putative branch site (score: 3)
cttttttatatctcc CT-rich tract
taatgcttttttatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aacaaatattggtctatttacaaactaaaaactcactgtagaattatgcttgggtaaactttggcattattgatcacctaatgcttttttatatctccagGATCCTGTCCAAAGTAGTGTGACTGTTGGAGTTTCACATTTTGAGAGATGCTCGCTCTGGGTTCAAGTTTTGTATTACCCGTTTTATGGAAGTGGTGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
aacaaat
- - - - - - - - - - -aaactaa
- - - - - - - - - - - - - - - - -cactgta
- - - - - - - - - - - - - - - - - - - - - - - tgcttgg