Sequence
atgc intronic sequence ATGC exonic sequencegttatccacatatccaaaactttccaattgttatctagtttctgtacaagaatttaatccttttgttcttatgcttcggggtcgtgttttttcagGCTCGCAAGACAATTGCAATGCTTAGTCAGGATTTTATTTATGATGGGTGTACTATACTTGTCCATGGGTATTCCAGAGTAGTACTGGAAGTTCTAAAGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G084647_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os12g31380.1 (Oryza sativa), 3'ss of exon 2
gttatccacatatccaaaactttccaattgttatctagtttctgtacaagaatttaatccttttgttcttatgcttcggggtcgtgttttttcagGCTCGCAAGACAATTGCAATGCTTAGTCAGGATTTTATTTATGATGGGTGTACTATACTTGTCCATGGGTATTCCAGAGTAGTACTGGAAGTTCTAAAGC
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--------gttatctagaattataatatagttttttt-tatataaatgagactttccacctttag--ctaatttcgtggaacaatgtttgtgcagGCTCGTAAGACAATTGCAATGCTCAGCCAGGATTTTATTTCAGATGGTTGTACTATTCTGGTACATGGTTATTCCAGAGTTGTTTTGGAAGTTCTAAAGC
upper sequence: GRMZM2G084647_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA07G05070.1 (Glycine max), 3'ss of exon 2
gttatccacatatccaaaactttccaattgttatctagtttctgtacaagaatttaatccttttgttcttatgcttcggggtcgtgtttttt------cagGCTCGCAAGACAATTGCAATGCTTAGTCAGGATTTTATTTATGATGGGTGTACTATACTTGTCCATGGGTATTCCAGAGTAGTACTGGAAGTTCTAAAGC
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gtaaatcactca--cgaactctcgcacgtgcgtgcgtgcgtgctttcattcactcacatcatcacttcctaaactcagttgattcgcttttcgcttcgcagGCTCGCAAGATCATTGCAATGCTCAGTCAAGATTTTATATTCGACGGCTGCACGATTCTCGTTCACGGATTCTCCCGAGTCGTGCTTCAGATTCTCAAAC
upper sequence: GRMZM2G084647_T02 (Zea mays), 3'ss of exon 2
lower sequence: AT1G53880.1 (Arabidopsis thaliana), 3'ss of exon 4
gttatccacatatccaaaactttccaattgttatctagtttctgtacaagaatttaatccttttgttcttatgcttcggggtcgtgttttttcagGCTCGCAAGACAATTGCAATGCTTAGTCAGGATTTTATTTATGATGGGTGTACTATACTTGTCCATGGGTATTCCAGAGTAGTACTGGAAGTTCTAAAGC
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------------gtcagtgttctctt-cgaacgggaattgtttacataaatagttagtagaagaagagtttgaacagtaactggaaattttgcagGCCCGAACGATAATTGCAATGCTTAGTCAAGATTTCATATTTGATGGGTGTACTATTCTGGTCCATGGTTTCTCCAGAGTTGTGTTTGAAATACTAAAGAMapped 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|211260422|gb|FL227455.1|FL227455EST: AATCGCGGCTAATTGAGCGAGGAGAAAAATTTGGGGAGATATCTTTAAAG GCTCGCAAGACAATTGCAATGCTTAGTCAGGATTTTATTTATGATGGGTGN
genomic: AATCGCGGCTAATTGAGCGAGGAGAAAAATTTGGGGAGATATCTTTAAAGgttatccaca ... gttttttcagGCTCGCAAGACAATTGCAATGCTTAGTCAGGATTTTATTTATGATGGGTGT
EST:
gi|19058029|gb|BM736696.1|BM736696EST: AATCGCGGCTAATTGAGCCAGGAGAAAAATTTGGGGAGATATCTTTAAAG GCTCGCAAGACGATTGCAATGCTTAGTCAGGATTTTATTTATGATGGGTGT
genomic: AATCGCGGCTAATTGAGCGAGGAGAAAAATTTGGGGAGATATCTTTAAAGgttatccaca ... gttttttcagGCTCGCAAGACAATTGCAATGCTTAGTCAGGATTTTATTTATGATGGGTGT
EST:
gi|211260424|gb|FL227457.1|FL227457EST: AATCGCGNCTAATTGAGCGAGGAGAAAAATTTGGGGAGATATCTTTAAAG GCTCGCAAGACAATTG
genomic: AATCGCGGCTAATTGAGCGAGGAGAAAAATTTGGGGAGATATCTTTAAAGgttatccaca ... gttttttcagGCTCGCAAGACAATTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctgtacaagaatttaatccttttgttcttatgcttcggggtcgtgttttttcagGCTCGCAAGACAATTGCAATGCTTAGTCAGGATTTTATTTATGATGGGTGTACTATACTTGTCCATGGGTATTCCAGAGTAGTACTGGAAGTTCTAAAGC
atttaat putative branch site (score: 4)
tgttttttc putative PPT
aatttaatcctttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttatccacatatccaaaactttccaattgttatctagtttctgtacaagaatttaatccttttgttcttatgcttcggggtcgtgttttttcagGCTCGCAAGACAATTGCAATGCTTAGTCAGGATTTTATTTATGATGGGTGTACTATACTTGTCCATGGGTATTCCAGAGTAGTACTGGAAGTTCTAAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG