Sequence
atgc intronic sequence ATGC exonic sequence...catctaagtactttaagatatagactgaacaatggtgctcctcattttgtcatgttggttatcttggaaccattatataatgtctgaggtggcctttcagGGAGAGGATTTAATTCGGGAAAGCGGTATTCCGTACACTATTGTAAGGCCATGTGCATTAACTGAGGAACCAGCTGGAGCCGATCTCATGTTTGACCAGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G019358_T03 (Zea mays), 3'ss of exon 11
lower sequence: LOC_Os02g13970.2 (Oryza sativa), 3'ss of exon 13
catctaagtactttaagatatagactgaacaatggtgctcctcattttgt-catgt-tggttatc--ttggaaccattatataatgtctgagg--tggcctttcagGGAGAGGATTTAATTCGGGAAAGCGGTATTCCGTACACTATTGTAAGGCCATGTGCATTAACTGAGGAACCAGCTGGAGCCGATCTCATGTTTGACCAGG
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----------------------gtatgcgccatttttcctttattattgtgcatttgtgcttattgattcacatcatgtctaaatgcttatcgcatgtcctttcagGGTGAGGATTTAATCCGGGAAAGTGGCATTCCATATACTATTGTGCGGCCATGTGCTCTAACAGAGGAACCAGCTGGAGCTGACCTCATATTTGACCAGG
upper sequence: GRMZM2G019358_T03 (Zea mays), 3'ss of exon 11
lower sequence: GLYMA05G29330.2 (Glycine max), 3'ss of exon 13
--catctaagtactttaagatatagactgaacaatggtgctcctcattttgtcatgttggttatcttggaaccattatataatgtctgaggtggcctttcagGGAGAGGATTTAATTCGGGAAAGCGGTATTCCGTACACTATTGTAAGGCCATGTGCATTAACTGAGGAACCAGCTGGAGCCGATCTCATGTTTGACCAGG
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ggaacctccttattgcttgccatagcctatttagttatgcaattcatatttccctgccacatacttgttcatttgctaaaagtggtttatgttgca--acagGGCGAGGATTTACTTAGAGAAAGTGGCATTCCCTATGTAATCGTGAGGCCTTGTGCATTAACTGAGGAGCCTGCTGGTGCCGATCTTATTTTTGATCAAG
upper sequence: GRMZM2G019358_T03 (Zea mays), 3'ss of exon 11
lower sequence: Vv10s0003g01640.t01 (Vitis vinifera), 3'ss of exon 13
catctaa-gtactttaagatatagactgaacaatggtg-ctcctcattttgtcatgttggttatcttggaaccattatataatgtctgaggtggcctttcagGGAGAGGATTTAATTCGGGAAAGCGGTATTCCGTACACTATTGTAAGGCCATGTGCATTAACTGAGGAACCAGCTGGAGCCGATCTCATGTTTGACCAGG
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tgtcttttgttggccaactagctaactaggaagtgaaaactccatgtggcagctctttatttattttttcatttttcttagccggtcacttttaca--acagGGAGAGGATTTGATACGGGAAAGTGGAGTGCCTTATGCAATTGTGAGGCCTTGTGCATTAACTGAGGAGCCTGCTGGAGCTGATCTCATTTTTGATCAAGMapped 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|78022714|gb|DV491101.1|DV491101EST: CTGTGACTGATGCTCCACCCTTCGATGCAAGCAACATTACTTCACTACAA GGAGAGGATTTAATTCGGGAAAGCGGTATTCCGTACACTATTGTAAGGCCA
genomic: CTGTGACTGATGCTCCACCCTTCGATGCAAGCAACATTACTTCACTACAAgtatcatttc ... ggcctttcagGGAGAGGATTTAATTCGGGAAAGCGGTATTCCGTACACTATTGTAAGGCCA
EST:
gi|4730655|gb|AI649821.1|AI649821EST: CTGTGACTGATGCTCCA-CCTTCGATGCAAGCAACATTACTTCACTACAA GGAGAGGATTTAATTCGGGAAAGCGGTATTCCGTACACTATTGTAAGGCCA
genomic: CTGTGACTGATGCTCCACCCTTCGATGCAAGCAACATTACTTCACTACAAgtatcatttc ... ggcctttcagGGAGAGGATTTAATTCGGGAAAGCGGTATTCCGTACACTATTGTAAGGCCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttgtcatgttggttatcttggaaccattatataatgtctgaggtggcctttcagGGAGAGGATTTAATTCGGGAAAGCGGTATTCCGTACACTATTGTAAGGCCATGTGCATTAACTGAGGAACCAGCTGGAGCCGATCTCATGTTTGACCAGG
cctttc CT-rich tract
aaccattatataat 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
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catctaagtactttaagatatagactgaacaatggtgctcctcattttgtcatgttggttatcttggaaccattatataatgtctgaggtggcctttcagGGAGAGGATTTAATTCGGGAAAGCGGTATTCCGTACACTATTGTAAGGCCATGTGCATTAACTGAGGAACCAGCTGGAGCCGATCTCATGTTTGACCAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA