Sequence
atgc intronic sequence ATGC exonic sequence...taaaatcctgtatccccttcattctaaattactcagcgcttaactttatctgttcacctagatatatactatgtctggacttataattttaatcatgcagCGATGTGGAAAATATTAACGATGCGGTTGAATTTGTTCTTCAGAATTTCATAGAAATGAACAAACTCTGGGTCCCGGATGCAGCATCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM5G844195_T03 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os03g58700.1 (Oryza sativa), 3'ss of exon 4
taaaatcctgtatccccttcattctaaattactcagcgcttaactttatctgttcacctagatatatact-atgtctggactt-ataattttaatcatgcagCGATGTGGAAAATATTAACGATGCGGTTGAATTTGTTCTTCAGAATTTCATAGAAATGAACAAACTCTGGGTCCCGGATGCAGCATCAG
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ttttgtcctgaaagtatatgctacttcacatttatgttcttctcttttacagt--acctaattgtttctttatacctgccttttgcaactttcatcacacagGGATGCTGACAGCATTAACGTCGCAGTTGAGTTTGTTCTTCAGAATTTCATAGAAATGAACAAACTCTGGGTCC-GAATGCAACATCAG
upper sequence: GRMZM5G844195_T03 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA14G40270.1 (Glycine max), 3'ss of exon 4
taaaatcctgtatccccttcattctaaattact-cagcgctta-actttatctgttcacctagatatatactatgtctggacttataattttaatcatgcagCGATGTGGAAAATATTAACGATGCGGTTGAATTTGTTCTTCAGAATTTCATAGAAATGAACAAACTCTGGGTCC-----CGGATGCAGCATCAG
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--caattttcaatttggaaaattatattttggtattatgtttggactgggtgtacaagcattaaaggaatggagattgaaaggtgcctctgttgtcctgcagGGAATCTAATAGTGTGATGGACGCAGTTGAATTTGTTCTACAGAATTTCACAGAAATGAATAAGCTTTGGGTTCGGTTGCAGTTGCAGCATCAG
upper sequence: GRMZM5G844195_T03 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA17G37870.1 (Glycine max), 3'ss of exon 5
taaaatcctgtatccccttcattctaaattactcagcgcttaactttatctgttcacctagatatatactatgtctggacttataatttta--atcatgcagCGATGTGGAAAATATTAACGATGCGGTTGAATTTGTTCTTCAGAATTTCATAGAAATGAACAAACTCTGGGTCC-----CGGATGCAGCATCAG
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--caattttcaatttggaaaattatatttttgtattatgtttggtctgggtggacaagaattaaaataatggagattgaaaggtgcctctgttgtccttcagGGAATCTAATAGTGTGATGGATGCAGTAGAATTTGTTCTACAGAATTTCACAGAAATGAATAAGCTTTGGGTTCGGTTGCAGTTGCAGCATCAGMapped 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|148965445|gb|EE016251.2|EE016251EST: TCTCAAATAAGCAGAGACAAATTGCCTGATATTGGTTCTGAGTACGAAGG CGATGTGGAAAATATTAACGATGCGGTTGAAT
genomic: TCTCAAATAAGCAGAGACAAATTGCCTGATATTGGTTCTGAGTACGAAGGgtactgtacc ... aatcatgcagCGATGTGGAAAATATTAACGATGCGGTTGAAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttatctgttcacctagatatatactatgtctggacttataattttaatcatgcagCGATGTGGAAAATATTAACGATGCGGTTGAATTTGTTCTTCAGAATTTCATAGAAATGAACAAACTCTGGGTCCCGGATGCAGCATCAG
ttttaat putative branch site (score: 3)
acttataattttaatc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taaaatcctgtatccccttcattctaaattactcagcgcttaactttatctgttcacctagatatatactatgtctggacttataattttaatcatgcagCGATGTGGAAAATATTAACGATGCGGTTGAATTTGTTCTTCAGAATTTCATAGAAATGAACAAACTCTGGGTCCCGGATGCAGCATCAG
- - - -ctgtatc
- - - - - - - cccttca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtctgg