Sequence
atgc intronic sequence ATGC exonic sequencegttggacactgttttcatataatatccttttttattcgttggctgattgcttgatgtccaaatggttcttcttttaatctttattataacttttcttcagCATGCTATGCATCACGGTGAGGGCTAAGAACCAGCTTAATGGAGAGTGTACAAGTAGTAAGCTTTGGCTTGTAGATTTGGCTGGAAGTGAGCGTTTAGCC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G092232_T01 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os03g02290.2 (Oryza sativa), 3'ss of exon 3
gttggacactgttttcatataatatccttttttattcgttggctgattgcttgatgtccaaatggttcttcttttaatctttattataacttttcttcagCATGCTATGCATCACGGTGAGGGCTAAGAACCAGCTTAATGGAGAGTGTACAAGTAGTAAGCTTTGGCTTGTAGATTTGGCTGGAAGTGAGCGTTTAGCC
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gttggtcaaaattttattat--tattcttttcttttc-tagagtacttgcttctggtcaaaatg-------ttttgacctttat---atctgtacctcagTATGCTTTGCATCATGGTGAGAGCGGAGAACCTGATGAATGGAGAATGTACAAGAAGTAAGCTTTGGCTTGTAGATTTGGCTGGAAGTGAACGATTAGCT
upper sequence: GRMZM2G092232_T01 (Zea mays), 3'ss of exon 9
lower sequence: AT2G22610.2 (Arabidopsis thaliana), 3'ss of exon 11
gttggacactgttttcatataatatccttttttattcgttggctgattgcttgatgtccaaatg-gttcttcttttaatctttattataacttttcttcagCATGCTATGCATCACGGTGAGGGCTAAGAACCAGCTTAATGGAGAGTGTACAAGTAGTAAGCTTTGGCTTGTAGATTTGGCTGGAAGTGAGCGTTTAGCC
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-----------gtatcatata-tgcctcttttgctgtcttgtttgaatgtttgccatcacattatgagggttgtttaa----tattgtaaaccct-tacagCATGCTCTCTATAATGGTGAAAGCAAAGAACCTGATGAATGGTGATTGCACAAAAAGCAAGCTTTGGCTTGTAGATTTAGCTGGAAGTGAGAGATTGGCA
upper sequence: GRMZM2G092232_T01 (Zea mays), 3'ss of exon 9
lower sequence: Vv00s0218g00050.t01 (Vitis vinifera), 3'ss of exon 11
gttggacactgttttcatataatatccttttttattcgttggctgattgcttgatgtccaaatggttcttcttttaatctttattataacttttcttcagCATGCTATGCATCACGGTGAGGGCTAAGAACCAGCTTAATGGAGAGTGTACAAGTAGTAAGCTTTGGCTTGTAGATTTGGCTGGAAGTGAGCGTTTAGCC
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---gtattcaacttcccaaaagctttctcttt--tctgtttccttatt-catcatattttgataagttgtgaataaaatttcaccaa---ttttgttcagCATGCTTTGTATAATGGTAAAAGCAAAAAACTTAATGAATGGCGACTGTACAAAGAGCAAGCTTTGGCTTGTGGATTTGGCTGGCAGTGAAAGGCTTGCAMapped 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|6021156|gb|AW066084.1|AW066084EST: GGCTGGTGGTTCAAACAATGGTAATGAGCACAGNNCAGNCGCTCCCACTG CATGCTATGCATCACG
genomic: GGCTGTTGGTTCAAACAATGTTAATGAGCACAG--CAGTCGCTCCCACTGgttggacact ... ttttcttcagCATGCTATGCATCACG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attgcttgatgtccaaatggttcttcttttaatctttattataacttttcttcagCATGCTATGCATCACGGTGAGGGCTAAGAACCAGCTTAATGGAGAGTGTACAAGTAGTAAGCTTTGGCTTGTAGATTTGGCTGGAAGTGAGCGTTTAGCC
ttataac putative branch site (score: 2)
cttttcttc CT-rich tract
ttcttcttttaatctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttggacactgttttcatataatatccttttttattcgttggctgattgcttgatgtccaaatggttcttcttttaatctttattataacttttcttcagCATGCTATGCATCACGGTGAGGGCTAAGAACCAGCTTAATGGAGAGTGTACAAGTAGTAAGCTTTGGCTTGTAGATTTGGCTGGAAGTGAGCGTTTAGCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG