Sequence
atgc intronic sequence ATGC exonic sequencegtcccccccccccccccccccgacctctactatacataattttagtgtttcttatgttatacatcttgtattatcctcttattttttacatcgctattgcttggcccatggtatttagttaaatctaatgttttgtatctgttcaagGAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTTCCTGAGAAGAAGTTTGAATGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G376727_T05 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os01g01307.2 (Oryza sativa), 3'ss of exon 3
gtcccccccccccccccccccgacctctactatacataattttagtgtttcttatgttatacatcttgtattatcctcttattttttacatcgctattgcttggcccatggtatttagttaaatctaatgttttgtatctgttcaagGAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTTCCTGAGAAGAAGTTTGAATGG
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-------------------------------gtttaatctgttacacttacacacttttttaaaacttcagc-tcttttttttttaaagaaaaatgctgttctgct-atgct-tgcaattgctcaattttttttttgtatggtgaagGAGGCCTATTCAACCCCCATCCTTGCACTTGATGTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGG
upper sequence: GRMZM2G376727_T05 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA19G27250.3 (Glycine max), 3'ss of exon 3
gtcccccccccccccccccccgacctctactatacataattttagtgtttcttatgttatacatcttgtattatcc-----tcttattttttacatcgctattgcttggcccatggtatttagttaaatctaatgttttgtatctgttcaagGAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTTCCTGAGAAGAAGTTTGAATGG
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---------------------------------------------------ccatgccattc-tgccgtagcagccatggctctgccatttagcaacactgatttttggtgagcaacttgtttcttattgtagtagtttttttccctattagGAGGCATATTCAACTCCCATATTGCCTTTGGATGTTCTTTCTGATAGACCTCCCGAGAAGAAGTTTGAATGG
upper sequence: GRMZM2G376727_T05 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA16G05530.2 (Glycine max), 3'ss of exon 3
gtcccccccccccccccccccgacctctactatacataattttagtgtttcttatgtta-tacatcttgtattatcctcttattttttacatcgctattgcttggcccatggtatttagttaaatctaatgttttgtatctgttcaagGAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTTCCTGAGAAGAAGTTTGAATGG----
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-------------------------------------------------------gttaatatctgttggaattgttgtctattttttattttatttttggtcagcaacttgtttcttattg----tagtagttttttttcctattagGAGGCATATTCAACTCCCATATTGCCTTTGGACGTTCTTTCTGATAGACCTCCTGAGAAGAAGTTTGAATGGGTAT
upper sequence: GRMZM2G376727_T05 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA16G05530.1 (Glycine max), 3'ss of exon 3
gtcccccccccccccccccccgacctctactatacataattttagtgtttcttatgtta-tacatcttgtattatcctcttattttttacatcgctattgcttggcccatggtatttagttaaatctaatgttttgtatctgttcaagGAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTTCCTGAGAAGAAGTTTGAATGG
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-------------------------------------------------------gttaatatctgttggaattgttgtctattttttattttatttttggtcagcaacttgtttcttattg----tagtagttttttttcctattagGAGGCATATTCAACTCCCATATTGCCTTTGGACGTTCTTTCTGATAGACCTCCTGAGAAGAAGTTTGAATGGMapped 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|15590113|gb|BI674729.1|BI674729EST: GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAG GAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
genomic: GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAGgtcccccccc ... tctgttcaagGAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
EST:
gi|211354951|gb|FL243591.1|FL243591EST: GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAG GAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACT
genomic: GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAGgtcccccccc ... tctgttcaagGAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gctattgcttggcccatggtatttagttaaatctaatgttttgtatctgttcaagGAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTTCCTGAGAAGAAGTTTGAATGG
atctaat putative branch site (score: 3)
tctgttc putative PPT
tatttagttaaatcta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcccccccccccccccccccgacctctactatacataattttagtgtttcttatgttatacatcttgtattatcctcttattttttacatcgctattgcttggcccatggtatttagttaaatctaatgttttgtatctgttcaagGAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTTCCTGAGAAGAAGTTTGAATGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT