Sequence
atgc intronic sequence ATGC exonic sequencegtatgttcactaccacatccacaaatttcattttaatatataaatagtccttgtttagtctgtatatttaactactagtgtacctaatgtcggataattttgtgtcctcgttgccactcatcctaattttactgccaatatttgtcagcagCAGCATGCCAAGATCGAATGAGGGTTTGAGGCTCATATTTTCGGCAGTTATAGGTATCATGCTGGGTTACCTGTTTGGGATCTCCTTCCCTACAGTCAAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G006507_T04 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os02g19510.1 (Oryza sativa), 3'ss of exon 2
---------gtatgttcactaccac--atccacaa--atttcattttaatatataaa--tagtccttgtttagtctgt---atatttaactactagtgt--acctaatgtcggataattttgt---gtcctcgttgccactcatcctaattttactgccaatatttgtcagcagCAGCATGCCAAGATCGAATGAGGGTTTGAGGCTCATATTTTCGGCAGTTATAGGTATCATGCTGGGTTACCTGTTTGGGATCTCCTTCCCTACAGTCAAC---
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gtaggtttgatactgcagctactgtttattcttaactgtttcttttccgtttctagcgctgattgataatttatctgttgcccacttgtctagtaacaccaaccaagtgttctttttctttctacggtgctcatggttgcacattgtaatttaattgtgaacattcatcatcaacagCACGCCAAGATCAAATGAGGGGATGAGGCTCATATTCTCGGCAGTTGTTGGTGTTATGTTGGGATACTTGTTTGGGGTTTCCTTCCCTACAGTAAATATA
upper sequence: GRMZM2G006507_T04 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os02g19510.3 (Oryza sativa), 3'ss of exon 1
gtatgttcactaccacatccacaaatttcattttaatatataaatagtccttgtttagtctgtatatttaactactagtgt--acctaatgtcggataattttgt---gtcctcgttgccactcatcctaattttactgccaatatttgtcagcagCAGCATGCCAAGATCGAATGAGGGTTTGAGGCTCATATTTTCGGCAGTTATAGGTATCATGCTGGGTTACCTGTTTGGGATCTCCTTCCCTACAGTCAAC---
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-----------------------------------------------------------ttgcccacttgtctagtaacaccaaccaagtgttctttttctttctacggtgctcatggttgcacattgtaatttaattgtgaacattcatcatcaacagCACGCCAAGATCAAATGAGGGGATGAGGCTCATATTCTCGGCAGTTGTTGGTGTTATGTTGGGATACTTGTTTGGGGTTTCCTTCCCTACAGTAAATATAMapped 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|18964821|gb|BM661215.1|BM661215EST: AGCTTCCGCAGCTCCTATGGCAAAGCCTCCCAATAGCATTGGCCGTAG CAGCATGCCAAGATCGAATGAGGGTTTGAGGCTCATATTTTCGGCAGTTAT
genomic: AGCTTCCGCAGCTCCTATGGCAAAGCCTCCCAATAGCATTGGCCGTAGgtatgttcac ... ttgtcagcagCAGCATGCCAAGATCGAATGAGGGTTTGAGGCTCATATTTTCGGCAGTTAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attttgtgtcctcgttgccactcatcctaattttactgccaatatttgtcagcagCAGCATGCCAAGATCGAATGAGGGTTTGAGGCTCATATTTTCGGCAGTTATAGGTATCATGCTGGGTTACCTGTTTGGGATCTCCTTCCCTACAGTCAAC
tcctaat putative branch site (score: 2)
taattttact 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgttcactaccacatccacaaatttcattttaatatataaatagtccttgtttagtctgtatatttaactactagtgtacctaatgtcggataattttgtgtcctcgttgccactcatcctaattttactgccaatatttgtcagcagCAGCATGCCAAGATCGAATGAGGGTTTGAGGCTCATATTTTCGGCAGTTATAGGTATCATGCTGGGTTACCTGTTTGGGATCTCCTTCCCTACAGTCAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG