Sequence
atgc intronic sequence ATGC exonic sequence...gatttggttcaatattacatgcccagtttgaaataatgcagcaatgaacatacattttggatgaccgatttgttataacaacattgtggtttttttccagGTACGGACATTCAGAGGGCACAAAAATGAAAAGAACTTCGTTGGATTGTCTGTGAACAATGAGTATATTGCTTGTGGAAGTGAAACAAATGAGGTTTTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G126795_T02 (Zea mays), 3'ss of exon 13
lower sequence: LOC_Os02g53140.1 (Oryza sativa), 3'ss of exon 11
gatttggttcaatattacatgcccagttt-gaaataatgcagcaatgaacat---acattttggatgaccgatttgttataacaacattgtggtttttttccagGTACGGACATTCAGAGGGCACAAAAATGAAAAGAACTTCGTTGGATTGTCTGTGAACAATGAGTATATTGCTTGTGGAAGTGAAACAAATGAGGTTTTTG
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-agctcatctattagtctg-gcttggtttagtagttacgtcatgctaggcttctcagaaaacagattgttgaccttttgtt-taaaatggttacctttttc-agGTAAGGACATTCAGAGGGCACAAGAATGAAAAGAACTTTGTTGGGCTGTCTGTAAATAACGAGTACATTGCCTGCGGGAGTGAAACGAATGAGGTTTTTG
upper sequence: GRMZM2G126795_T02 (Zea mays), 3'ss of exon 13
lower sequence: Vv12s0059g01420.t01 (Vitis vinifera), 3'ss of exon 11
gatttggttcaatattacatgcccagtttgaaataatgcagcaatgaacatacattttggatgaccgatttgttataaca-acattgtggtttttttccagGTACGGACATTCAGAGGGCACAAAAATGAAAAGAACTTCGTTGGATTGTCTGTGAACAATGAGTATATTGCTTGTGGAAGTGAAACAAATGAGGTTTTTG
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-ctttttcccaattcagtaacttcattttgagacttctctattccaacttttgaattattattttcaagaaattaaaactcattccaaggggtgttcttagGTTCGCACCTTCAGAGGACACACTAATGAGAAGAACTTCGTGGGCCTCTCTGTAAACAGTGAATATATTTCTTGTGGCAGTGAAACAAACGACGTCTTCG
upper sequence: GRMZM2G126795_T02 (Zea mays), 3'ss of exon 13
lower sequence: PP1S86_153V6.1 (Physcomitrella patens), 3'ss of exon 11
-gatttggttcaatattacatgcccagtttgaaataatgcagcaatgaacatacattttggatgaccgatttgttataacaacatt--gtggtttttttccagGTACGGACATTCAGAGGGCACAAAAATGAAAAGAACTTCGTTGGATTGTCTGTGAACAATGAGTATATTGCTTGTGGAAGTGAAACAAATGAGGTTTTTG
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gtaccagctagcagtttgagtttccgttttttgggtcttgactgtttatgatgacttgtgcataa---agttattcaactgacatcaggtgttctgaacgcagATAAGGACACTAAAAGGTCACACCAATGAAAAGAATTTTGTTGGACTTACTGTCAACAGTGAGTATATCGCCTGTGGCAGTGAAACAAACGAGGTGTTTG
upper sequence: GRMZM2G126795_T02 (Zea mays), 3'ss of exon 13
lower sequence: PP1S154_52V6.1 (Physcomitrella patens), 3'ss of exon 11
gatttggttcaatattacatgcccagtttgaaataatgcagcaatgaacatacattttggatgaccgatttgttataacaacattg---tggtttttttccagGTACGGACATTCAGAGGGCACAAAAATGAAAAGAACTTCGTTGGATTGTCTGTGAACAATGAGTATATTGCTTGTGGAAGTGAAACAAATGAGGTTTTTG
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--cttttatctat-ttacttatttatttttgactcatttggggtatacccaatgcattagtgagttaaggtgtcctaagtttttgaagttgatcatactgcagATACGAACGCTCAGAGGACACACAAATGAGAAGAATTTTGTAGGATTGACTGTAAACAATGAGTATATTGCCTGCGGGAGTGAATCAAATGAGGTTTTCGMapped 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|149104054|gb|EE289486.2|EE289486EST: CATCAACAGATAGCACGTTACGTTTATGGGATGTCAAGGATAATTTGCCG GTACGGACATTCAGAGGGCACAAAAATGAAAAGAACTTCGTTGGATTGTCT
genomic: CATCAACAGATAGCACGTTACGTTTATGGGATGTCAAGGATAATTTGCCGgtatgctctt ... ttttttccagGTACGGACATTCAGAGGGCACAAAAATGAAAAGAACTTCGTTGGATTGTCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaacatacattttggatgaccgatttgttataacaacattgtggtttttttccagGTACGGACATTCAGAGGGCACAAAAATGAAAAGAACTTCGTTGGATTGTCTGTGAACAATGAGTATATTGCTTGTGGAAGTGAAACAAATGAGGTTTTTG
ttataac putative branch site (score: 2)
tttttttcc putative PPT
atttgttataacaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gatttggttcaatattacatgcccagtttgaaataatgcagcaatgaacatacattttggatgaccgatttgttataacaacattgtggtttttttccagGTACGGACATTCAGAGGGCACAAAAATGAAAAGAACTTCGTTGGATTGTCTGTGAACAATGAGTATATTGCTTGTGGAAGTGAAACAAATGAGGTTTTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG