Sequence
atgc intronic sequence ATGC exonic sequence...ttatatttatttcatgttttagatgtttgtgaacttgctgttgtcattggtttagcctatccagcatacaagtttggtaatgattgcggtaatttaccagCCTTACAGAAATTCAGAACGCACGTGGCATCATGGATGTTCTTTCAGAGATGCTGGATGCTTTAGATCCAGGTAACAGAGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G053925_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os02g17350.2 (Oryza sativa), 3'ss of exon 5
-------------ttatatttatttcatgttttagatgtttgtga-acttgctgttgtcatt--------ggttt--agcctat-ccagcatacaagtttggtaatgattgcggtaattt-accagCCTTACAGAAATTCAGAACGCACGTGGCATCATGGATGTTCTTTCAGAGATGCTGGATGCTTTAGATCCAGGTAACAGAGAG
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gtattgcagtttttgaaattttcttattacaatggatgtgtatactactgaactttagcatttcaaaaaagaattgaaacatatgtttccatacaaatttggtaatgatcatttttatttcaccagCCTAGCAGAAATTCAGAATGCACGAGGCATCATGGATGTTCTTTCCGAGATGTTGAATGCTTTGGATCCTAGTAACAGAGAG
upper sequence: GRMZM2G053925_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA14G21410.1 (Glycine max), 3'ss of exon 5
ttatatttatttcatgttttagatgtttgtgaacttgctgttgtcattggtttagcctatccagcatacaagtttggtaa-tgattg-cggtaatttaccagCCTTACAGAAATTCAGAACGCACGTGGCATCATGGATGTTCTTTCAGAGATGCTGGATGCTTTAGATCCAGGTAACAGAGAG----
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--gtattatgacgatgataatgagagttaagttttggtacagattgccatatatagttatgcagtattatgttctaatatctaattgatctttcttttatagTTTGACTGAAATTCAGAATGCACGGGGCATCATGGATGTTCTTGCAGAAATGCTCAATGCCTTAGACCCTAGTAACAAAGAAGTAA
upper sequence: GRMZM2G053925_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA17G26440.2 (Glycine max), 3'ss of exon 5
ttatatttatttcatgttttagatgtttgtgaacttgctgttgtcattggtttagcctatccagcatacaagtttggtaa-tgattg-cggtaatttaccagCCTTACAGAAATTCAGAACGCACGTGGCATCATGGATGTTCTTTCAGAGATGCTGGATGCTTTAGATCCAGGTAACAGAGAG
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--gtattagggtgatgataatgagagttaagttttggtacagattgtcatatatagttatgcagtattttcttctaatatctgattgatctttcttttctagTTTGACTGAAATTCAGAATGCACGTGGCATCATGGATGTTCTTGCAGAAATGCTCAATGCCTTAGACCCTAGTAACAAAGAA
upper sequence: GRMZM2G053925_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA06G08710.1 (Glycine max), 3'ss of exon 5
ttatatttatttcatgttttagatgtttgtgaactt--gctgttgtcattggtttagcctatccagcataca-agtttggtaatgattgcggtaatt--taccagCCTTACAGAAATTCAGAACGCACGTGGCATCATGGATGTTCTTTCAGAGATGCTGGATGCTTTAGATCCAGGTAACAGAGAG
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---tacccaata-atatgtt-gatgatgacaaaattatgctaatggtacagactacagtcaataatcatgcatggatttgctttgattgaattttctattgccagTTTGTCTGAAATTCAGAATGCACGCGGTATTATGGATGTTCTTGCAGAAATGCTCAATGCATTAGACCCTGGTAACAAAGAA
upper sequence: GRMZM2G053925_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA04G08600.1 (Glycine max), 3'ss of exon 5
ttatatttatttcatgttttagatgtttgtgaactt--gctgt-tgtcattggtttagcctatccagcatacaa-gtttggtaatgattgcggtaatt--taccagCCTTACAGAAATTCAGAACGCACGTGGCATCATGGATGTTCTTTCAGAGATGCTGGATGCTTTAGATCCAGGTAACAGAGAG
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-----tctaattactattat-gttgatggcaaaattaggctacatggtacagactaccgtcaataatcatgcattgatttgttttgattgaactttctattgccagTTTGTCCGAAATTCAGAATGCACGTGGTATTATGGATGTTCTTGCAGAAATGCTCAATGCATTAGACCCTGGTAACAAAGAA
upper sequence: GRMZM2G053925_T01 (Zea mays), 3'ss of exon 5
lower sequence: Vv04s0008g03720.t01 (Vitis vinifera), 3'ss of exon 5
ttatatttatttca-tgttttagatgtttgtgaacttgctgttgtcattggtttagcctatccagcatacaagtttggtaatgattgcggtaatttaccagCCTTACAGAAATTCAGAACGCACGTGGCATCATGGATGTTCTTTCAGAGATGCTGGATGCTTTAGATCCAGGTAACAGAGAG
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taaaatctgtctctctggttaacatcttttattgcatggtttcgatctttttgcaagttattatgcatgtcttgtttttaatttgtatattc-cttcctagTTTGACAGAAATTCAGAATGCACGAGGTATTATGGATGTCCTTGCAGAAATGCTGAGTGCATTAGATCCAGGAAACAAAGAGMapped 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|89757177|gb|DY686889.1|DY686889EST: TCACAGCANGAGGAACTTGAATTACCAGTTTCAGATTTCCCTGCATTAAG CCTTACAGAAATTCAGAACGCACGTGGCATCATGGATGTTCTTTCAGAGAT
genomic: TCACAGCAGGAGGAACTTGAATTACCAGTTTCAGATTTCCCTGCATTAAGgtatacattt ... aatttaccagCCTTACAGAAATTCAGAACGCACGTGGCATCATGGATGTTCTTTCAGAGAT
EST:
gi|78088815|gb|DV517208.1|DV517208EST: TCACAGCAGGAGGAACTTGAATTACCAGTTTCAGATTTCCCTGCATTAAG CCTTACAGAAATTCAGAACGCACGTGGCATCATGGATGTTCTTTCAGAGAT
genomic: TCACAGCAGGAGGAACTTGAATTACCAGTTTCAGATTTCCCTGCATTAAGgtatacattt ... aatttaccagCCTTACAGAAATTCAGAACGCACGTGGCATCATGGATGTTCTTTCAGAGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attggtttagcctatccagcatacaagtttggtaatgattgcggtaatttaccagCCTTACAGAAATTCAGAACGCACGTGGCATCATGGATGTTCTTTCAGAGATGCTGGATGCTTTAGATCCAGGTAACAGAGAG
taattta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttatatttatttcatgttttagatgtttgtgaacttgctgttgtcattggtttagcctatccagcatacaagtttggtaatgattgcggtaatttaccagCCTTACAGAAATTCAGAACGCACGTGGCATCATGGATGTTCTTTCAGAGATGCTGGATGCTTTAGATCCAGGTAACAGAGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - catgttt
- - - - - - - - - - - -tgtttgt
- - - - - - - - - - - - - - - - - - gctgttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcataca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgattgc