Sequence
atgc intronic sequence ATGC exonic sequencegtattatttcacctaatgggcaactgatgagattcactactgtctcaaggctaaccagtggtttgttaactttcagTGGTTTGGTGAAGGGGAGAAGTATGTAAAGGCTGTTTTCTCACTAGCAAGTAAAATAGCACCCAGTGTTATATTTATTGATGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G126453_T02 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os11g43970.1 (Oryza sativa), 3'ss of exon 22
gtattatttcacctaa-tgggcaactgatgagattcac----tactgt------ctcaaggctaaccagtggtttgttaactttcagTGGTTTGGTGAAGGGGAGAAGTATGTAAAGGCTGTTTTCTCACTAGCAAGTAAAATAGCACCCAGTGTTATATTTATTGATGAG
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gtatgatggcatccaaattttgcattaatgaggtgtacagtgtactatgtgattctcaaagctaaatgctgttttttctactttcagTGGTTTGGCGAAGGAGAGAAATATGTAAAAGCTGTTTTCTCATTAGCAAGTAAAATAGCTCCAAGCGTTATATTCATTGATGAG
upper sequence: GRMZM2G126453_T02 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA04G37050.1 (Glycine max), 3'ss of exon 5
---------gtattatttcacctaatgggcaactgatgagattcactactgtctcaaggctaaccagtggtttgttaac------tttcagTGGTTTGGTGAAGGGGAGAAGTATGTAAAGGCTGTTTTCTCACTAGCAAGTAAAATAGCACCCAGTGTTATATTTATTGATGAG
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gttaaatttgcttcactgggtttattttaatgtctctgctatcagttagttgttcat--tttatctgtgttcttttcccattttgcttcagTGGTTTGGTGAGGGTGAAAAGTATGTCAAAGCTGTTTTTTCCCTGGCTAGTAAAATTGCTCCTAGCGTGATATTTGTTGACGAA
upper sequence: GRMZM2G126453_T02 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA10G02400.1 (Glycine max), 3'ss of exon 21
-------------gtattatttcacctaatgggcaactgatgagattcactactgtctcaaggctaaccagtggtttgttaactttcagTGGTTTGGTGAAGGGGAGAAGTATGTAAAGGCTGTTTTCTCACTAGCAAGTAAAATAGCACCCAGTGTTATATTTATTGATGAG
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gtattaatgttgtaagttacttttttttgtggtgtatttccttg-tatgcttcagtgacaagaaaaat--atggttttgtttgttgcagTGGTTTGGTGAAGGAGAGAAGTATGTCAAAGCTGTCTTTTCTCTAGCCAGCAAAATTGCTCCAAGTGTTATTTTTGTTGACGAG
upper sequence: GRMZM2G126453_T02 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA05G03270.1 (Glycine max), 3'ss of exon 18
----gtattatttcacctaatgggca-actgatgaga--ttcactactgtctcaaggctaaccagtggtttgttaact---------ttcagTGGTTTGGTGAAGGGGAGAAGTATGTAAAGGCTGTTTTCTCACTAGCAAGTAAAATAGCACCCAGTGTTATATTTATTGATGAG
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gttaaatttgtccctctccaagtgtatattgatctcacctttattagtttgctgtgcatatcaactcatgttcttgcccctctttgcttcagTGGTTTGGGGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGTAAAATTTCACCTAGTGTTATATTTGTTGATGAG
upper sequence: GRMZM2G126453_T02 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA17G13850.1 (Glycine max), 3'ss of exon 20
----gtattatttcacctaatgggca-actgatgaga--ttcactactgtctcaaggctaaccagtggtttgttaact--------ttcagTGGTTTGGTGAAGGGGAGAAGTATGTAAAGGCTGTTTTCTCACTAGCAAGTAAAATAGCACCCAGTGTTATATTTATTGATGAG
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gttaaatttgtctctctctaagtgtatattgatttcacctttattagtttgctgtgcatacaactcattttcttgcctctttttgcttcagTGGTTTGGTGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGTAAAATTTCACCTAGTGTTATATTTGTTGATGAG
upper sequence: GRMZM2G126453_T02 (Zea mays), 3'ss of exon 7
lower sequence: AT1G02890.1 (Arabidopsis thaliana), 3'ss of exon 21
gtatt-atttcacctaatgggcaactgatgagattcactactgtctcaaggctaaccagtggtttgttaactttcagTGGTTTGGTGAAGGGGAGAAGTATGTAAAGGCTGTTTTCTCACTAGCAAGTAAAATAGCACCCAGTGTTATATTTATTGATGAG
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gtattgatcacttaaaacggttacctgactctatagtgttttctttgagattagacttgacttgagatttcgtgtagTGGTTTGGTGAGGGAGAGAAGTACGTTAAAGCTGTTTTCTCTTTAGCAAGTAAGATAGCTCCAAGCGTCATTTTTGTTGATGAG
upper sequence: GRMZM2G126453_T02 (Zea mays), 3'ss of exon 7
lower sequence: Vv07s0005g00200.t01 (Vitis vinifera), 3'ss of exon 21
----------gtattatttcacctaatgggcaactgatgagattcactactgtctcaaggctaaccagtggtttgtta--actttcagTGGTTTGGTGAAGGGGAGAAGTATGTAAAGGCTGTTTTCTCACTAGCAAGTAAAATAGCACCCAGTGTTATATTTATTGATGAG
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gtaaatatgtgcatcaaaatggtgactatgcagctctcttttgcaagtcttgttttgaaaatatttgacatcctgatattgcttgcagTGGTTTGGGGAAGGAGAGAAATATGTCAAAGCTGTGTTCTCTCTAGCTAGTAAAATTGCACCTAGTGTTGTTTTTGTTGACGAG
upper sequence: GRMZM2G126453_T02 (Zea mays), 3'ss of exon 7
lower sequence: Vv17s0000g01550.t01 (Vitis vinifera), 3'ss of exon 22
-----------------------gtattatttcacctaatgggca-actgatgagattcactactgtctcaaggctaaccagtggtttgttaactttcagTGGTTTGGTGAAGGGGAGAAGTATGTAAAGGCTGTTTTCTCACTAGCAAGTAAAATAGCACCCAGTGTTATATTTATTGATGAG
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gttatcattgataagtagcttcttttttctatcccttgatctctatagtgggttgttatttttttttttctcagctggtttctcatctttcttgttgcagTGGTTTGGAGAGGGCGAGAAGTATGTGAAGGCCGTTTTCTCACTTGCCAGTAAAATTGCTCCTAGTGTTGTATTTGTGGATGAAMapped 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|58029637|gb|CX725064.1|CX725064EST: AAGCAGGCGCTAATTTCATCAATATATCAATGTCGAGCATTACATCGAAG TGGTTTGGTGAAGGGGAGAAGTATGTAAAGGCTGTTTTCTCACTAGCAAGT
genomic: AAGCAGGCGCTAATTTCATCAATATATCAATGTCGAGCATTACATCGAAGgtattatttc ... taactttcagTGGTTTGGTGAAGGGGAGAAGTATGTAAAGGCTGTTTTCTCACTAGCAAGT
EST:
gi|32934898|gb|CF039710.1|CF039710EST: AAGCAGGCGCTAATTTCATCAATATATCAATGTCGAGCATTACATCTAAG TGGTTTGGTGAAGGGGAGAAGTATGTAAAGGCTGTTTTCTCACTAGCAAGT
genomic: AAGCAGGCGCTAATTTCATCAATATATCAATGTCGAGCATTACATCGAAGgtattatttc ... taactttcagTGGTTTGGTGAAGGGGAGAAGTATGTAAAGGCTGTTTTCTCACTAGCAAGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aactgatgagattcactactgtctcaaggctaaccagtggtttgttaactttcagTGGTTTGGTGAAGGGGAGAAGTATGTAAAGGCTGTTTTCTCACTAGCAAGTAAAATAGCACCCAGTGTTATATTTATTGATGAG
tgttaac putative branch site (score: 2)
ctttc CT-rich tract
tttgttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattatttcacctaatgggcaactgatgagattcactactgtctcaaggctaaccagtggtttgttaactttcagTGGTTTGGTGAAGGGGAGAAGTATGTAAAGGCTGTTTTCTCACTAGCAAGTAAAATAGCACCCAGTGTTATATTTATTGATGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG