Sequence
atgc intronic sequence ATGC exonic sequence...tttgttagaataaacttttaacttgttttcagttggtcatgattttttttaagaagtcagaatttggtgtgcgtctctaatcatctagcaacaaatgcagATCTTCTTCAATCCTGAGATTTACTCTGCCGACTTCTCCACTCCTTTACCTGAGTTGATTGATAACTGTGTTCAGTCTGCACCAATTGACACAAGGAGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G305332_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os08g03440.1 (Oryza sativa), 3'ss of exon 6
tttgttagaataaacttttaacttgttttcagttggtcatgattttttttaagaagtcagaatttggtgtgcgtctctaatcatctagcaac--aaatgcagATCTTCTTCAATCCTGAGATTTACTCTGCCGACTTCTCCACTCCTTTACCTGAGTTGATTGATAACTGTGTTCAGTCTGCACCAATTGACACAAGGAGAG
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--cattttattgacatttggactcttcaccttgaaatgacattaaaaggagaaaaacatgaatttgatgtaatttactaaccttctactagcgcaaatgcagATCTTCTTCCATCCCGAGATTTACTCTGCCGACTTCTCCACTCCTCTACCTGAACTAATTGATAGCTGTGTTCAATCTGCGCCAATTGACACAAGGAGAG
upper sequence: GRMZM2G305332_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA08G13780.1 (Glycine max), 3'ss of exon 5
tttgttagaataaacttttaacttgttttcagttggtcatgattttttttaagaagtcag--aatttggtgtgcgtctctaatcatctagcaacaaatgcagATCTTCTTCAATCCTGAGATTTACTCTGCCGACTTCTCCACTCCTTTACCTGAGTTGATTGATAACTGTGTTCAGTCTGCACCAATTGACACAAGGAGAG
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-gtgtaattcctgagctaatctataggttcagttggg-gtcattatatcaataggaccagtcaatttaacatatctgtatgttttccctatgatttctgcagATTTTCTTTAATCCTGAGATATATAGTAGTGACTTTACTACCCCTTTGCCAGTTGTAATAGACAAATGCATTCAGTCTGCGCCAATTGACACAAGGAGAT
upper sequence: GRMZM2G305332_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA08G13810.1 (Glycine max), 3'ss of exon 5
tttgttagaataaacttttaacttgttttcagtt--ggtcatgattttttttaagaagtcagaatttggtgtgcgtctctaatcatctagcaacaaatgcagATCTTCTTCAATCCTGAGATTTACTCTGCCGACTTCTCCACTCCTTTACCTGAGTTGATTGATAACTGTGTTCAGTCTGCACCAATTGACACAAGGAGAG
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-gtctaatagtggagctaatccatgggttcagtttgggtcattatattaac-aggacttgtcaaattaacatatatgtgtgttttccccatgatttctgcagATTTTCTTTAATCCCGAGATATATGGCAGTGACTTTACCACCCCTTTGCCAGTTGTAATAGACAAGTGTATTCAGTCTGCGCCAATTGACACAAGGAGAT
upper sequence: GRMZM2G305332_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA05G30630.1 (Glycine max), 3'ss of exon 5
tttgttagaataaacttttaacttgttttcagtt--ggtcatgattttttttaaga-agtcagaatttggtgtgcgtctctaatcatctagcaacaaatgcagATCTTCTTCAATCCTGAGATTTACTCTGCCGACTTCTCCACTCCTTTACCTGAGTTGATTGATAACTGTGTTCAGTCTGCACCAATTGACACAAGGAGAG
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-gtctaattgtggagctaatccatgggttcagtttgggtcataatgttaacaggatcagtcata--ttaacatatctgtatgctttccctatgatttctgcagATTTTCTTTAATCCTGAGATATATGGCAGTGACTTTACCACCCCTTTGCCAGTTGTAATAGACAAGTGCATTCAGTCTGCGCCAATTGACACAAGGAGAT
upper sequence: GRMZM2G305332_T01 (Zea mays), 3'ss of exon 1
lower sequence: Vv01s0137g00280.t01 (Vitis vinifera), 3'ss of exon 5
--tttgttagaataa-acttttaacttgttttcagttggtc--atgattttttttaagaagtcagaatttggtgtgcgtctctaatcatctagcaacaaatgcagATCTTCTTCAATCCTGAGATTTACTCTGCCGACTTCTCCACTCCTTTACCTGAGTTGATTGATAACTGTGTTCAGTCTGCACCAATTGACACAAGGAGAG
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tgtttacttgtgcattgcatttcatctactagatgatgctttgataagtcttttaaaaaaa--ggaatttgtttttgatgattaat---ctggctgattatgcagATTTTCTTCAATCCTGAGATCTACAGCAGCGATTTTGCAACCCCTTTACCAGCTGTAATAGACAAGTGTATTCAGTCTGCACCAATTGACACAAGAAGGGMapped 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|110965811|gb|EE185711.1|EE185711EST: GGGTCCCATATACAATTGACATTGGATATGAACGCTTTCTTGGGCCAGAG ATCTTCTTCAATCCTGAGATTTACTCTGCCGACTTCTCCACTCCTTTACCT
genomic: GGGTCCCATATACAATTGACATTGGATATGAACGCTTTCTTGGGCCAGAGgtttattgct ... acaaatgcagATCTTCTTCAATCCTGAGATTTACTCTGCCGACTTCTCCACTCCTTTACCT
EST:
gi|93281998|gb|EB674262.1|EB674262EST: GGGTCCCATATACAATTGACATTGGATATGAACGCTTTCTTGGGCCAGAG ATCTTCTTCAATCCTGAGATTTACTCTGCCGACTTCTCCACTCCTTTACCT
genomic: GGGTCCCATATACAATTGACATTGGATATGAACGCTTTCTTGGGCCAGAGgtttattgct ... acaaatgcagATCTTCTTCAATCCTGAGATTTACTCTGCCGACTTCTCCACTCCTTTACCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttttaagaagtcagaatttggtgtgcgtctctaatcatctagcaacaaatgcagATCTTCTTCAATCCTGAGATTTACTCTGCCGACTTCTCCACTCCTTTACCTGAGTTGATTGATAACTGTGTTCAGTCTGCACCAATTGACACAAGGAGAG
ctctaat putative branch site (score: 3)
agaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttgttagaataaacttttaacttgttttcagttggtcatgattttttttaagaagtcagaatttggtgtgcgtctctaatcatctagcaacaaatgcagATCTTCTTCAATCCTGAGATTTACTCTGCCGACTTCTCCACTCCTTTACCTGAGTTGATTGATAACTGTGTTCAGTCTGCACCAATTGACACAAGGAGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - -gaataaa
- - - - - - - - - - -cttgttt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tggtgtg