Sequence
atgc intronic sequence ATGC exonic sequence...catatgtgtgataaaataacttcagactgtcttgtaagtatctgctccagatcatgcggaagttgtttcatgtattaatgatgtattgttttttatgtagGTTGTCACTTGCCTCCGTCAACCATCACAAGGGCCTACCTTTGGAATCAAGGGAGGTGCAGCTGGAGGTGGGTACAGCCAAGTTATACCCATGGATGAGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM5G824944_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os09g27420.2 (Oryza sativa), 3'ss of exon 2
--catatgtgtgataaaataacttcagactgtcttgtaagtatctgctccagatcatgcggaagttgtttca-tgtattaatgatgtattgttttttatgtagGTTGTCACTTGCCTCCGTCAACCATCACAAGGGCCTACCTTTGGAATCAAGGGAGGTGCAGCTGGAGGTGGGTACAGCCAAGTTATACCCATGGATGAGT
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gacatatcgatgtacatattatgtttatttttttatagagtatatatt--atgttattgatatgctttactactttactcaatat-taatgttgctattatagGTTGTCACTTGCCTCCGTCAACCATCACAAGGGCCTACTTTTGGAATCAAGGGGGGTGCTGCTGGAGGTGGCTACAGCCAAGTCATACCCATGGATGAGT
upper sequence: GRMZM5G824944_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA20G38740.1 (Glycine max), 3'ss of exon 2
catatgtgtgataaaataacttcagactgtc-ttgtaag--tatctgctccagat-catgcggaagttgtttcatgtat-taatgatgtattgttttttatg--tagGTTGTCACTTGCCTCCGTCAACCATCACAAGGGCCTACCTTTGGAATCAAGGGAGGTGCAGCTGGAGGTGGGTACAGCCAAGTTATACCCATGGATGAGT
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-------ctggttatttgggttcaagatattattgaaaaactacaatctttaatcgcatgtcaaagttatgctggatacataatcccatcttatctctttttgttagGTAGTCACCTGCCTTCGTCAACCATCGCAAGGACCTACTTTTGGAATTAAAGGAGGTGCAGCTGGTGGTGGCTATAGCCAAGTTATTCCCATGGATGAAT
upper sequence: GRMZM5G824944_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA10G44010.1 (Glycine max), 3'ss of exon 2
-------catatgtgtgataaaataacttcagactgt--cttgtaagtatctgctccagatcatgcggaagttgtttcatgtattaatgatgtattgttttttatgtagGTTGTCACTTGCCTCCGTCAACCATCACAAGGGCCTACCTTTGGAATCAAGGGAGGTGCAGCTGGAGGTGGGTACAGCCAAGTTATACCCATGGATGAGT
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caggttatttgggttcaagatattaatggaaaactataactttcaatcgcttg-tcaaagttatgctgga-------tacataatcccatcttatctctttttgt-tagGTAGTTACCTGCCTTCGTCAACCATCGCAAGGACCTACTTTTGGAATTAAAGGAGGCGCAGCTGGTGGTGGCTATAGCCAAGTTATTCCCATGGATGAAT
upper sequence: GRMZM5G824944_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA10G13840.1 (Glycine max), 3'ss of exon 3
catatgtgtgataaaataacttcagactgtcttgtaagtat--ctgctccagatcatgcg--gaagttgtttcatgtat-taatgatgtattgttttttatg--tagGTTGTCACTTGCCTCCGTCAACCATCACAAGGGCCTACCTTTGGAATCAAGGGAGGTGCAGCTGGAGGTGGGTACAGCCAAGTTATACCCATGGATGAGT
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-------ctggttatttgggttcaagatattattgaaaaactacaatctttaatcgtatgtcaaagttatgctggatacataatcccatcttatctctttttgttagGTAGTCACCTGCCTTCGTCAACCATCGCAAGGACCTACTTTTGGAATTAAAGGAGGTGCAGCTGGTGGTGGCTATAGCCAAGTTATTCCCATGGATGAAT
upper sequence: GRMZM5G824944_T01 (Zea mays), 3'ss of exon 2
lower sequence: AT1G50480.1 (Arabidopsis thaliana), 3'ss of exon 2
catatgtgtgataaaataacttcagactgtcttgtaagtatctgctccagatcatgcggaagttgtttcatgtattaatgatgtattgttttttatgtagGTTGTCACTTGCCTCCGTCAACCATCACAAGGGCCTACCTTTGGAATCAAGGGAGGTGCAGCTGGAGGTGGGTACAGCCAAGTTATACCCATGGATGAGT
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--gttctctcttgctttcatttattagcttatgccttatgcttgcttttggacaaacttctctctttgtattgatttgtgaagtgttgttgctta----gGTTGTTACTTGTCTTCGCCAACCGTCACAAGGACCCACCTTTGGAATCAAAGGAGGTGCAGCTGGTGGTGGGTATAGTCAGGTGATTCCTATGGATGAGT
upper sequence: GRMZM5G824944_T01 (Zea mays), 3'ss of exon 2
lower sequence: Vv06s0004g01160.t01 (Vitis vinifera), 3'ss of exon 2
catatgtgtg-ataaaataactt--cagactgtcttgtaagtatc-tgctccagatcatgcggaagttgtttcatgtattaatgatgtattgttttttatgt-agGTTGTCACTTGCCTCCGTCAACCATCACAAGGGCCTACCTTTGGAATCAAGGGAGGTGCAGCTGGAGGTGGGTACAGCCAAGTTATACCCATGGATGAGT
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-gcatggatgcattttttaatttgacgaacgcaattgtggtgattatgccccaagtaaaactg---ttaattaatgtcaatattctgt-ctgcttatgatgttagGTTGTCACCTGCCTTCGTCAACCATCACAAGGACCAACTTTTGGAATTAAAGGAGGTGCAGCAGGTGGTGGTTACAGTCAAGTGATTCCCATGGACGAGTMapped 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|32927916|gb|CF032728.1|CF032728EST: CCACCACCGTCGGGCTGTGTCAGGCTCTCGGCGCTTTCCTTGATAAAAAG GTTGTCACTTGCCTCCGTCAACCATCACAAGGGCCTACCTTTGGAATCAAG
genomic: CCACCACCGTCGGGCTGTGTCAGGCTCTCGGCGCTTTCCTTGATAAAAAGgtgagatgct ... ttttatgtagGTTGTCACTTGCCTCCGTCAACCATCACAAGGGCCTACCTTTGGAATCAAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tccagatcatgcggaagttgtttcatgtattaatgatgtattgttttttatgtagGTTGTCACTTGCCTCCGTCAACCATCACAAGGGCCTACCTTTGGAATCAAGGGAGGTGCAGCTGGAGGTGGGTACAGCCAAGTTATACCCATGGATGAGT
tattaat putative branch site (score: 2)
ttgtttttt putative PPT
atgtattaatgatgta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
catatgtgtgataaaataacttcagactgtcttgtaagtatctgctccagatcatgcggaagttgtttcatgtattaatgatgtattgttttttatgtagGTTGTCACTTGCCTCCGTCAACCATCACAAGGGCCTACCTTTGGAATCAAGGGAGGTGCAGCTGGAGGTGGGTACAGCCAAGTTATACCCATGGATGAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - aaaataa
- - - - - - - - - - - - - - - - - - - - - - - - - - catgcgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gttgttt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - catgtat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgatgta