Sequence
atgc intronic sequence ATGC exonic sequence...ttggaaactgggacatgtaaatttggaatgctttattgctgcaactgcaatagagaagaaaactcattttctaagctgatgatttgaaatttaaatgcagGTTCTGGTTTGCATACATTTGTGCTGTATCTGGGTCCTCATATTGCTCTGTTCACTATTAAGGCTGTTCAATGTGGTCGAATTGATCTAAAAATTGCTCC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G054811_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os01g57066.1 (Oryza sativa), 3'ss of exon 3
-ttggaaactgggacatgtaaatttggaatgctttattgctgcaactgcaatagagaagaaaactcattttctaagctgatgatttgaaattt--aaatgcagGTTCTGGTTTGCATACATTTGTGCTGTATCTGGGTCCTCATATTGCTCTGTTCACTATTAAGGCTGTTCAATGTGGTCGAATTGATCTAAAAATTGCTCC
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ttctggtttaatgactttcaaatttggaaattttga--acttcggatgaaaatgagctcatccttttttttactaactaa-gattaatatctttgaaattcagGTTCAGGTTTGCATACATTTGTTCTGTATCTGGGCCCTCATATTGCCCTCTTCACTATTAAGGCTGTTCAATGTGGTCGGATTGATTTGAAAACTGCTCC
upper sequence: GRMZM2G054811_T02 (Zea mays), 3'ss of exon 3
lower sequence: AT1G05360.1 (Arabidopsis thaliana), 3'ss of exon 3
--------------------ttggaaactgggacatgtaaatttggaatgctttattgctgcaactgcaatagagaagaaaactcattttctaagctgatgatttgaaatttaaatgcagGTTCTGGTTTGCATACATTTGTGCTGTATCTGGGTCCTCATATTGCTCTGTTCACTATTAAGGCTGTTCAATGTGGTCGAATTGATCTAAAAATTGCTCC
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gtaagaatatgttttactccctccaggacattctgtgtcagtttcttatttccggtttatcttattgctgagatgttactaacatagttctc---ttttctcttttatttatgattccagGATCTGGTTTGCATACATTTGTTCTTTATTTGGGTCCCCATATTGCTTTATTTACCATAAAAGTAATGCAGTGCGGGCGAGTCGATTTAAAGAGTGCTAT
upper sequence: GRMZM2G054811_T02 (Zea mays), 3'ss of exon 3
lower sequence: Vv05s0020g03160.t01 (Vitis vinifera), 3'ss of exon 3
ttggaaactgggacatgtaaatttggaatgctttattgctgcaactgcaatagagaagaaaactcattttctaagctgatgatttgaaatttaaatgcagGTTCTGGTTTGCATACATTTGTGCTGTATCTGGGTCCTCATATTGCTCTGTTCACTATTAAGGCTGTTCAATGTGGTCGAATTGATCTAAAAATTGCTCC
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cctcaagttgctattccacaaatcagtaacctttatcttgttttcttttcttttcctttattactattattatttttaattattattattatttgcgcagGGTCTGGTTTGCACACTTTTGTCCTTTATCTGGGGCCTCATATTGCGCTATTCACAATAAAAGCCATGCAATGCGGTCGAGTCGACATAAAAAGTGCTCCMapped 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|42492017|gb|CK701063.1|CK701063EST: TGGTAGCTTCTGGAATCTTGCTCGTCGTTTCGGATGGTCTGCATAAGAAG GTTCTGGTTTGCATACATTTGTGCTGTATCTGGGTCCTCATATTGCTCTGT
genomic: TGGTAGCTTCTGGAATCTTGCTCGTCGTTTCGGATGGTCTGCATAAGAAGgtttgttgca ... ttaaatgcagGTTCTGGTTTGCATACATTTGTGCTGTATCTGGGTCCTCATATTGCTCTGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgcaatagagaagaaaactcattttctaagctgatgatttgaaatttaaatgcagGTTCTGGTTTGCATACATTTGTGCTGTATCTGGGTCCTCATATTGCTCTGTTCACTATTAAGGCTGTTCAATGTGGTCGAATTGATCTAAAAATTGCTCC
agctgat putative branch site (score: 4)
atgatttgaaatttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttggaaactgggacatgtaaatttggaatgctttattgctgcaactgcaatagagaagaaaactcattttctaagctgatgatttgaaatttaaatgcagGTTCTGGTTTGCATACATTTGTGCTGTATCTGGGTCCTCATATTGCTCTGTTCACTATTAAGGCTGTTCAATGTGGTCGAATTGATCTAAAAATTGCTCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - -catgtaa
- - - - - - - - - - - - - aatgctt
- - - - - - - - - - - - - - - - - -ttgctgc
- - - - - - - - - - - - - - - - - - - - - aactgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - -aagaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gctgatg