Sequence
atgc intronic sequence ATGC exonic sequenceATCGGAATACCGACCCGTGTCCAGACTGCCTTCCGTATGTCAGAAGTTGCAGAACCATACATACGCCGAAGAGCTGTCAGACATTTAGAGAAAGGAAGAGttgtcatatttgctgctggaacagggaacccattcttcacgactgatacagctgctgctctccgttgtgccgaaagtgagtccatcttctactcttcact...
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G139462_T03 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os01g73450.1 (Oryza sativa), 5'ss of exon 5
ATCGGAATACCGACCCGTGTCCAGACTGCCTTCCGTATGTCAGAAGTTGCAGAACCATACATACGCCGAAGAGCTGTCAGACATTTAGAGAAAGGAAGAGttgtcatatttgctgctggaacagggaacccattcttcacgactgatacagctgctgctctccgttgtgccgaaagtgagtccatcttctactcttcact---------------------------------------------------------------------------
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---------------------------------------------------------------------------GTCAGGCATTTAGAGAAAGGAAGAGTTGTTATATTTGCTGCTGGTACAGGGAACCCATTCTTTACAACTGATACAGCTGCTGCTCTTCGTTGTGCAGAAAgtgagtttatcctccgtttctcactaatgaactggtgtaattgtaatcataaaatctcaacaaaagtagtattggagatacgtgaatacttttatatttt
upper sequence: GRMZM2G139462_T03 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA08G15610.1 (Glycine max), 5'ss of exon 5
ATCGGAATACCGACCCGTGTCCAGACTGCCTTCCGTATGTCAGAAGTTGCAGAACCATACATACGCCGAAGAGCTGTCAGACATTTAGAGAAAGGAAGAGttgtcatatttgctgctggaacagggaacccattcttcacgactgatacagctgctgctctccgttgtgccgaaagtgagtccatcttctact--cttcact-------------------------------------------------------------------------
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---------------------------------------------------------------------------GTGAGGCATTTGGAAAAAGGAAGGGTTGTCATTTTTGCTGCTGGAACTGGAAATCCATTCTTTACCACAGACACTGCTGCAGCACTCCGATGTGCAGAAAgtaagttaaatttttattgatgtgatctagaacaaggatagctctaatcatttggttcctatagtttcacgattcgtatcttttagtccctatagtttga
upper sequence: GRMZM2G139462_T03 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA05G32340.1 (Glycine max), 5'ss of exon 5
ATCGGAATACCGACCCGTGTCCAGACTGCCTTCCGTATGTCAGAAGTTGCAGAACCATACATACGCCGAAGAGCTGTCAGACATTTAGAGAAAGGAAGAGttgtcatatttgctgctggaacagggaacccattcttcacgactgatacagctgctgctctccgttgtgccgaaagtgagtccatcttctact--cttcact-------------------------------------------------------------------------
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---------------------------------------------------------------------------GTGAGGCATTTGGAAAAAGGAAGGGTTGTCATTTTTGCTGCTGGAACTGGTAATCCATTCTTTACCACAGACACTGCTGCAGCACTCCGATGTGCAGAAAgtaagttacatttttattgatgtgatctagaacaagcataccacactaagctctatctgtttatcgttgatggttccgtttatattgttttccctgtaat
upper sequence: GRMZM2G139462_T03 (Zea mays), 5'ss of exon 5
lower sequence: AT3G18680.1 (Arabidopsis thaliana), 5'ss of exon 5
ATCGGAATACCGACCCGTGTCCAGACTGCCTTCCGTATGTCAGAAGTTGCAGAACCATACATACGCCGAAGAGCTGTCAGACATTTAGAGAAAGGAAGAGttgtcatatttgctgctggaacagggaacccattcttcacgactgatacagctgctgctctccgttgtgccgaaagtgagtcca----tcttctactcttcact------------------------------------------------------
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---------------------------------------------------------------------------ATCAGACATCTAGAAAAAGGAAGGGTTGTAATATTTGCAGCTGGAACAGGCAATCCATTTTTCACCACCGATACTGCAGCGGCTCTTCGATGTGCTGAAAgtaagtaaagaggtggtttccgtttaagttttctccaatgattattcgcaacactaaaaaaaaacttttcgcattggacacag
upper sequence: GRMZM2G139462_T03 (Zea mays), 5'ss of exon 5
lower sequence: Vv04s0044g00890.t01 (Vitis vinifera), 5'ss of exon 6
ATCGGAATACCGACCCGTGTCCAGACTGCCTTCCGTATGTCAGAAGTTGCAGAACCATACATACGCCGAAGAGCTGTCAGACATTTAGAGAAAGGAAGAGttgtcatatttgctgctggaacagggaacccattcttcacgactgatacagctgctgctctccgttgtgccgaaagtgagtccatcttctactcttcact---------------------------------------------------------------------------
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---------------------------------------------------------------------------ATTAGGCATTTGGAGAAAGGAAGGGTCGTGATTTTTGCTGCTGGAACTGGAAATCCATTCTTCACAACCGATACTGCTGCAGCCCTTCGTTGTGCAGAAAgtaaggttatcatttgtttcgtattgtatttattcaaatgggggtggcttcaacaccatccaaatgactggccgttttgaattacttgaaaattttctaa
upper sequence: GRMZM2G139462_T03 (Zea mays), 5'ss of exon 5
lower sequence: PP1S241_40V6.1 (Physcomitrella patens), 5'ss of exon 5
-ATCGGAATACCGACCCGTGTCCAG--ACTGCCTTCCGTA-TGTCAGAAGTTGCAGAACCAT----ACATACGCCGAAGAGCTGTCAGAC-ATTTAGAGAAAGGAAGAGttgtcatatttgctgctggaacagggaacc-----cattcttcacgactgatacagctgctgctctccgttgtgccgaaagtgagtccatcttctactcttcact---------------------------------------------
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ATTCGTCATTTGGAAAAGGGCAGAGTTGTCATCTTCGGTGCTGGCACAGGCAACCCATTCTTCACTACAGATACCGCAG--CTGCCCTTCGAGCTGCTGAAAgtaagagcaagcatattgactacaagaattttgattcatggattatctcctctcatcgcaacgctgcttcaatagcgtgttttagtagtta-tgattctgctggtttgtgcaaattgcgtcattatctaacattgttttggctgtgtggactcacagMapped 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|84980665|gb|DW531014.1|DW531014EST: AGAACCATACATACGCCGAAGAGCTGTCAGACATTTAGAGAAAGGAAGAG ATGCAAGAGTTNNNNNNNCTCCCTCTTCTCTTATTCAGTTTTTATATATAC
genomic: AGAACCATACATACGCCGAAGAGCTGTCAGACATTTAGAGAAAGGAAGAGttgtcatatt ... atctccagagATGCAAGAGTTGGGGGGGCTCCCTCTTCTCTTATTCAGTTTTTATATATAC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATCGGAATACCGACCCGTGTCCAGACTGCCTTCCGTATGTCAGAAGTTGCAGAACCATACATACGCCGAAGAGCTGTCAGACATTTAGAGAAAGGAAGAGttgtcatatttgctgctggaacagggaacccattcttcacgactgatacagctgctgctctccgttgtgccgaaagtgagtccatcttctactcttcact
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA