Sequence
atgc intronic sequence ATGC exonic sequence...tatgatcgctatctattttaaaaacattttccacctgattatatttctttctaactcagaaaacaaagaataaattccatatgctttgttccatctgcagGGTGATAGTATCCTTGCAGATTCTGGTACGGAGCAACTTGAATTCATAGCTCTGTCACAGAGGACTGGAGATCCCAAATACCAGCAGAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G130889_T02 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os04g51690.1 (Oryza sativa), 3'ss of exon 6
----tatgatcgct--atctatt--ttaaaaacattttccacctgattatatttctttctaactcagaaaacaaagaataaattccatatgctttgttccatctgcagGGTGATAGTATCCTTGCAGATTCTGGTACGGAGCAACTTGAATTCATAGCTCTGTCACAGAGGACTGGAGATCCCAAATACCAGCAGAAG
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catcaataattgctcaatggattgtttataaatgcatttgacctgaaactattttctctctctttggatggtgaaccatgtacattgtgtgttt--------ctgcagGGTGATAGTATCCTTGCTGATTCTGGCACGGAGCAACTTGAATTTATAGCTTTGTCACAGAGGACTGGTGATCCCAAGTATCAACAAAAG
upper sequence: GRMZM2G130889_T02 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA07G02290.1 (Glycine max), 3'ss of exon 5
---------------------------------------------------------------------------tatgatcgcta--tctattttaaaaacattttccacctgattatatttctttctaactcagaaaa-------caaaga----ataaattccatatgctttgttccatctgcagGGTGATAGTATCCTTGCAGATTCTGGTACGGAGCAACTTGAATTCATAGCTCTGTCACAGAGGACTGGAGATCCCAAATACCAGCAGAAG
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gtaaattatagaattctgttaatgcatttcagtcttacttaacagtaggagatttgggatattacttaaatgggttgtagtccttgattttaactacctggcattgtttacat--ttttattacccttagagtcagagatatggctttaatgggtttatataatccttgtgtttt-tattttgttaagGGTGAGAGTATCTTGGCAGATTCTGGCACTGAACAACTGGAATTCATTGTTCTATCCCAAAGGACTGGAGACCCGAAGTATCAGCAGAAG
upper sequence: GRMZM2G130889_T02 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA08G23730.1 (Glycine max), 3'ss of exon 6
-----------------------------------------------------------------------tatgatcgctatctattttaaaaacatt---ttccacctgattatatttctttctaactcaga-aaacaaagaataaat---tccatatgctttgt---tccatctgc---agGGTGATAGTATCCTTGCAGATTCTGGTACGGAGCAACTTGAATTCATAGCTCTGTCACAGAGGACTGGAGATCCCAAATACCAGCAGAAG
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gtaaattatagaattctgtttatgcattcagtcttactgaacactaggagattttggatattacttcaatgggttgtagtccttgattttaactacctggcattctttacgtttttattacccttagagtcagagaaatatggctttaatgggtttatattccttgtgtttttattttgtcaagGGTGAGAGTATCTTGGCAGATTCTGGCACTGAACAACTGGAATTCATTGTTCTATCCCAAAGGACTGGAGACCTCAAGTATCAGCAGAAG
upper sequence: GRMZM2G130889_T02 (Zea mays), 3'ss of exon 5
lower sequence: AT3G21160.1 (Arabidopsis thaliana), 3'ss of exon 6
---------tatgatcgctatctattttaaaaacattttccacctgattatatttctttctaactcagaaaacaaagaataaattccatatgctttgttccatctgcagGGTGATAGTATCCTTGCAGATTCTGGTACGGAGCAACTTGAATTCATAGCTCTGTCACAGAGGACTGGAGATCCCAAATACCAGCAGAAG
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tttcactagcaagctca-tgtttaatgtggaa-tgggtaccatctgatc-tatttacatatgtctttcggtttagttgat------tgtttacttctttcttgttttagGGAGACAGTATTCTTGCAGATTCTGGTACTGAGCAGCTTGAATTTATTGCCCTTTCCCAGAGGACAGGGGACCCAAAATATCAGCAAAAGMapped 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|32928872|gb|CF033684.1|CF033684EST: ATAGAATAAACCTAGCTCATGGACGAGCCCATAATCCTGGATGGACTAAC GGTGATAGTATCCTTGCAGATTCTGGTA
genomic: ATAGAATAAACCTAGCTCATGGACGAGCCCATAATCCTGGATGGACTAACgtgagttact ... ccatctgcagGGTGATAGTATCCTTGCAGATTCTGGTA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctttctaactcagaaaacaaagaataaattccatatgctttgttccatctgcagGGTGATAGTATCCTTGCAGATTCTGGTACGGAGCAACTTGAATTCATAGCTCTGTCACAGAGGACTGGAGATCCCAAATACCAGCAGAAG
ttctaac putative branch site (score: 1)
ctttgttcc putative PPT
aaaacaaagaataaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tatgatcgctatctattttaaaaacattttccacctgattatatttctttctaactcagaaaacaaagaataaattccatatgctttgttccatctgcagGGTGATAGTATCCTTGCAGATTCTGGTACGGAGCAACTTGAATTCATAGCTCTGTCACAGAGGACTGGAGATCCCAAATACCAGCAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC