Sequence
atgc intronic sequence ATGC exonic sequencegtaagtttcaatcttaatctgtaagttacctacatagtttcctgtgtttttagctgtataaaattggttcttatttttctaattatgatggttgcagGCTTGCTTACCTTCATGAAGCTATTGAGCCAAAAGTTGTACATCGAGATATAAAATCAAGCAACATATTGATTGATGATGAATTTAATGGCAAAGTATCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G017386_T03 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os01g44110.1 (Oryza sativa), 3'ss of exon 5
gtaagtttcaa-----tcttaatctgtaagttacctacatagtttcctgtgtttttagctgtataaaattggttcttatttttctaattatgatggttgcagGCTTGCTTACCTTCATGAAGCTATTGAGCCAAAAGTTGTACATCGAGATATAAAATCAAGCAACATATTGATTGATGATGAATTTAATGGCAAAGTATCT
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gtaagtttcatcagcttctcagtctataagatac--atgttgtttctgttgtcggaatttgtttgatgata--ttttggcgggttaatcatgat---cacagACTAGCTTACCTTCATGAAGCTATAGAACCAAAAGTTGTGCACCGAGATATAAAATCAAGCAATATCTTGATTGATGAGGAATTTAATGGCAAGGTCTCT
upper sequence: GRMZM2G017386_T03 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA14G03290.1 (Glycine max), 3'ss of exon 3
---gtaagtttcaat--cttaatctgtaagttacctacatagtttc--ctgtgtttttagctgtataaaattggttcttatttttctaattatgatggttgcagGCTTGCTTACCTTCATGAAGCTATTGAGCCAAAAGTTGTACATCGAGATATAAAATCAAGCAACATATTGATTGATGATGAATTTAATGGCAAAGTATCT
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ccagtagcttagagtagcttagtc-gtctgttcgtgtcaaagattcaatgatggaccttgttctcctgattaaccccttagtgtactg-tgat--tggtggcagGCTTGCTTATTTACATGAAGCAATAGAACCAAAAGTTATTCACCGGGATATAAAGTCTAGCAACATATTGATTGATGATGAATTCAATGCAAAGGTTTCT
upper sequence: GRMZM2G017386_T03 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA02G45540.1 (Glycine max), 3'ss of exon 5
gtaagtttcaatcttaatctgtaagttacctacatagtttcctgtgtttttagctgtataaaattggttctt-------atttttctaat----tatga-tggttgcagGCTTGCTTACCTTCATGAAGCTATTGAGCCAAAAGTTGTACATCGAGATATAAAATCAAGCAACATATTGATTGATGATGAATTTAATGGCAAAGTATCT
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--------atattttacttaattagttacaaatttatttttatggaagattcaacg-atggaacttgttctgctaattaacccccctaatgtactgtgactggtggcagGCTTGCTTATTTACATGAAGCAATAGAACCAAAAGTTATTCACCGGGATATAAAGTCTAGCAACATATTGATTGACGATGAATTCAATGCAAAGGTTTCT
upper sequence: GRMZM2G017386_T03 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA08G42170.2 (Glycine max), 3'ss of exon 3
---gtaagtttcaatcttaatctgtaagttacctacatagtttcctgtgtttttagctgtataaaattggttcttattttt-ctaattatga-tggttgcagGCTTGCTTACCTTCATGAAGCTATTGAGCCAAAAGTTGTACATCGAGATATAAAATCAAGCAACATATTGATTGATGATGAATTTAATGGCAAAGTATCT
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tgtgcttgcttca--ttggatacctaatttactgttatggcagtttcaacattaggcctaattccactgattaaactccttatttactatgactggtggcagGCTAGCTTACTTACATGAAGCAATAGAACCGAAAGTCGTTCACCGGGATATAAAGTCAAGCAACATATTGATTGATACTGATTTCAATGCAAAGGTTTCT
upper sequence: GRMZM2G017386_T03 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA18G12830.1 (Glycine max), 3'ss of exon 3
--gtaagtttcaatcttaatctgtaagttacctacatagtttcctgtgtttttagctgtataaaattggttcttattttt-ctaattatga-tggttgcagGCTTGCTTACCTTCATGAAGCTATTGAGCCAAAAGTTGTACATCGAGATATAAAATCAAGCAACATATTGATTGATGATGAATTTAATGGCAAAGTATCT-
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gtgcttgcttca--ctggatacctaatttactgttatggcagtttcaacattaggcctaattccactgattaaactccttatttactatgactggtggcaggCTAGCTTACTTACATGAAGCAATAGAACCGAAAGTTGTTCACCGGGATATAAAGTCTAGCAACATATTGATTGATACTGAGTTCAATGCAAAGGTTTCTG
upper sequence: GRMZM2G017386_T03 (Zea mays), 3'ss of exon 4
lower sequence: AT2G42960.1 (Arabidopsis thaliana), 3'ss of exon 3
gtaagtttcaatcttaatctgtaagttacctacatagtttcctgtgtttttagctgtataaaattggttcttatttttctaattatgatggttgcagGCTTGCTTACCTTCATGAAGCTATTGAGCCAAAAGTTGTACATCGAGATATAAAATCAAGCAACATATTGATTGATGATGAATTTAATGGCAAAGTATCT
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gtaagt---ggtttgaaacagtttagcttttgttggatatgttcaatgcttgattat-taaaagggtctgcaatttgtacaact-------ttacagGCTTGCTTACTTGCATGAAGCAATAGAACCAAAAGTGGTCCACAGAGACATAAAAGCAAGTAATATATTGATTGATGATGAGTTTAATGCAAAACTCTCT
upper sequence: GRMZM2G017386_T03 (Zea mays), 3'ss of exon 4
lower sequence: Vv12s0028g00310.t01 (Vitis vinifera), 3'ss of exon 5
--------gtaagtttcaatcttaatctgtaagttacctacatagtttcctgtgtttttagctgtataaaattggttcttatttttctaattatgatggttgcagGCTTGCTTACCTTCATGAAGCTATTGAGCCAAAAGTTGTACATCGAGATATAAAATCAAGCAACATATTGATTGATGATGAATTTAATGGCAAAGTATCT
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tattccattcagaactgaaatctactccagaactgaaat-tgaacatcttggtctttcacactttgaaaaagtcaaaaaaatgtttcatattg----ggttgcagGCTTGCCTATTTGCATGAGGCAATAGAACCGAAAGTTGTTCATCGAGACATAAAATCAAGCAACATCTTGATTGATGATGAGTTCAATGCAAAGGTTTCT
upper sequence: GRMZM2G017386_T03 (Zea mays), 3'ss of exon 4
lower sequence: EFJ16857 (Selaginella moellendorffii), 3'ss of exon 4
gtaagtttcaatcttaatctgtaagttacctacatagtttcctgtgtttttagctgtataaaattggttcttatttttctaattatgatggttgcagGCTTGCTTACCTTCATGAAGCTATTGAGCCAAAAGTTGTACATCGAGATATAAAATCAAGCAACATATTGATTGATGATGAATTTAATGGCAAAGTATCT
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------------gtaagtctttgccttatgtttat----tcgaccaccccgagttactcacagctg--tttgattcgattgcttctctgcgtgccagGTTAGCATATCTGCACGAAGCTTTGGAGCCCAAAGTTGTACATAGGGACATAAAATCAAGCAACATACTCATTGATTCAACTTACAACGCCAGGATATCAMapped 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|5901151|gb|AW042251.1|AW042251EST: AGGCACTGCAAAAGC GCTTGCTTACCTTCATGAAGCTATTGAGCCAAAAGTTGTACATCGAGATAT
genomic: AGGCACTGCAAAAGCgtaagtttca ... atggttgcagGCTTGCTTACCTTCATGAAGCTATTGAGCCAAAAGTTGTACATCGAGATAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtgtttttagctgtataaaattggttcttatttttctaattatgatggttgcagGCTTGCTTACCTTCATGAAGCTATTGAGCCAAAAGTTGTACATCGAGATATAAAATCAAGCAACATATTGATTGATGATGAATTTAATGGCAAAGTATCT
ttctaat putative branch site (score: 2)
tataaaattggttctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtttcaatcttaatctgtaagttacctacatagtttcctgtgtttttagctgtataaaattggttcttatttttctaattatgatggttgcagGCTTGCTTACCTTCATGAAGCTATTGAGCCAAAAGTTGTACATCGAGATATAAAATCAAGCAACATATTGATTGATGATGAATTTAATGGCAAAGTATCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG