Sequence
atgc intronic sequence ATGC exonic sequence...cagggaagcctagaattttgtcatgcttcctttgataacaataaaccttgaatttccatgttttgctacatcttcaaattgttttccatgacttccctagAAATCACGAATTGGGATGCCAAAGCTGGAGCGCACATTTGAGACTTTGGTTGATACATTTGTATTCCTAGACAAGAACAAGGATGGATATGTCAGCAAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G16060.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os06g40720.1 (Oryza sativa), 3'ss of exon 3
-cagggaagcctagaattttgtcatgcttcc-tttgataacaataaaccttgaatttccatgttttgctacatcttcaaattgttttccatgacttccctagAAATCACGAATTGGGATGCCAAAGCTGGAGCGCACATTTGAGACTTTGGTTGATACATTTGTATTCCTAGACAAGAACAAGGATGGATATGTCAGCAAAA
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gataggatacttagtaactttctgtacctgtatcctattttagatctgtcttaactcatttctgccaggagcttctctgtttccttgacataa--tgcacagAAGATTAAGATGGGATTAGGAAATCTTGAGGCAACTTTTGAGACCTTGGTTGATGCATTTGTTTTTTTGGATAAGAACAAAGATGGATATGTCAGTAAGG
upper sequence: GLYMA16G16060.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G142693_T02 (Zea mays), 3'ss of exon 3
cagggaagcctagaatttt-gtcatgcttcct-ttgataacaataaaccttgaatttccatgttttgctacatcttcaaattgttt---tccatgac----ttccctagAAATCACGAATTGGGATGCCAAAGCTGGAGCGCACATTTGAGACTTTGGTTGATACATTTGTATTCCTAGACAAGAACAAGGATGGATATGTCAGCAAAA
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-------tgttagagtattagacatgcctcaagttgatttcc-tattttacgagttcttttattctatcac-tttggatattgcttgtgcccttgacattataccttagAGAAAAAGAATGGGGTTAGGGAACCTTGAACCAACATTTGAAACATTGGTTGAGTCATTTGTCTTCTTGGACAAGAACAAAGATGGATATGTCAGTAAGA
upper sequence: GLYMA16G16060.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G142693_T01 (Zea mays), 3'ss of exon 1
cagggaagcctagaattttgtca--tgcttcctttgataacaataaaccttgaatttccatgttttgctacatc-ttcaaattgttttccatgacttccctagAAATCACGAATTGGGATGCCAAAGCTGGAGCGCACATTTGAGACTTTGGTTGATACATTTGTATTCCTAGACAAGAACAAGGATGGATATGTCAGCAAAA
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-tttgaaacattgg-ttgagtcatttgtcttcttggacaagaacaaagatggatatgtcagtaagagtgagatgatacaggcaataaatgagaccattggagGAGAGCGCTCTTCAGGGCGCATAGGCATGAGA--AGATTTG------------------------------------------------------------
upper sequence: GLYMA16G16060.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G155822_T01 (Zea mays), 3'ss of exon 3
cagggaagcctagaat-tttgtcatgcttcctttgataacaataaaccttgaatttccatgttttgctacatcttcaaattgttttccatgac----ttccctagAAATCACGAATTGGGATGCCAAAGCTGGAGCGCACATTTGAGACTTTGGTTGATACATTTGTATTCCTAGACAAGAACAAGGATGGATATGTCAGCAAAA
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----ataagttagagtatttggcatgcctcgagttgagatcctattttatgtgttttttttaatt-ctgtccctctggatgtatgtccttgacatgatattttagAGAAAAAGAATGGGGTTAGGTAGCCTTGAACCAACATTTGAAACATTGGTCGAGTCTTTTGTCTTCTTGGACAAGAACAAAGATGGATATGTCAGCAAGA
upper sequence: GLYMA16G16060.1 (Glycine max), 3'ss of exon 4
lower sequence: AT4G26470.1 (Arabidopsis thaliana), 3'ss of exon 3
--------cagggaagcctagaattttgtcatgcttcctttgataacaataaaccttgaatttccat--gttttgctacatcttcaaattgttttccatgacttccctagAAATCACGAATTGGGATGCCAAAGCTGGAGCGCACATTTGAGACTTTGGTTGATACATTTGTATTCCTAGACAAGAACAAGGATGGATATGTCAGCAAAA
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gtacccgcaaaatacttttatcgatctcctatgctcggtttgata---tttcgttttagattttgattggttattcaatggttttaaagctatttttgtgtgatgaatagAAATGGACAATGGGAATGCCAAAGCTGGAACCAACATTCGAGACGCTTGTTGACACATTTGTGTTCCTAGACGAGAACAAGGACGGATATGTTAGCCGCG
upper sequence: GLYMA16G16060.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv19s0015g01200.t01 (Vitis vinifera), 3'ss of exon 3
--cagggaagcctagaattttgtcatgcttcctttgataacaataaacct-tgaatttccatgttttgctacatcttcaaattgttttccatgacttccctagAAATCACGAATTGGGATGCCAAAGCTGGAGCGCACATTTGAGACTTTGGTTGATACATTTGTATTCCTAGACAAGAACAAGGATGGATATGTCAGCAAAA
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gccagttttcattttcctctcctggcacccccacccaacattatgtgcttatgtagttctttcttcccttacattttt---ttgtattccatgacactgctagAAATCACGGATGGGGATGCCAAATCTGGAGGCAACCTTTGAAACACTGGTTGATGCATTTGTGTTCCTGGACAAGAATAAGGATGGTTATGTGAGCAAGAMapped 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|192311802|gb|FK003607.1|FK003607EST: TTCTTTGCGTTGTCTACCTTCTCAAGGATGACCCTGCAGCTCTTCACGCT AAATCACGAATTGGGATGCCAAAGCTGGAGCGCACATTTGAGACTTTGGTT
genomic: TTCTTTGCGTTGTCTACCTTCTCAAGGATGACCCTGCAGCTCTTCACGCTgtatcctagc ... acttccctagAAATCACGAATTGGGATGCCAAAGCTGGAGCGCACATTTGAGACTTTGGTT
EST:
gi|192311803|gb|FK003608.1|FK003608EST: TTCTTTGCGTTGTCTACCTTCTCAAGGATGACCCTGCAGCTCTTCACGCT AAATCACGAATTGGGATGCCAAAGCTGGAGCGCACATTTGAGACTTTGGTT
genomic: TTCTTTGCGTTGTCTACCTTCTCAAGGATGACCCTGCAGCTCTTCACGCTgtatcctagc ... acttccctagAAATCACGAATTGGGATGCCAAAGCTGGAGCGCACATTTGAGACTTTGGTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccttgaatttccatgttttgctacatcttcaaattgttttccatgacttccctagAAATCACGAATTGGGATGCCAAAGCTGGAGCGCACATTTGAGACTTTGGTTGATACATTTGTATTCCTAGACAAGAACAAGGATGGATATGTCAGCAAAA
ttccatgac putative branch site
cttccct CT-rich tract
aaattgtttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cagggaagcctagaattttgtcatgcttcctttgataacaataaaccttgaatttccatgttttgctacatcttcaaattgttttccatgacttccctagAAATCACGAATTGGGATGCCAAAGCTGGAGCGCACATTTGAGACTTTGGTTGATACATTTGTATTCCTAGACAAGAACAAGGATGGATATGTCAGCAAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA