Sequence
atgc intronic sequence ATGC exonic sequencegttcttgctttctctttgcattcaatatgtatttatattctaccttcttttgaaatttactaaactgtgaagtagatagaaagttgacactggaactaaacatgcaaaaaattggcaagGTTTGTGCAGGCTAATGGCTTGGCAGCTGGGCTTGCAGCTTCTAACCTTGTTCTGTACGCATTTGTTTATACGCCGTTGAAGCAAATACACCCTGTTAAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G162776_T03 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os01g34390.1 (Oryza sativa), 3'ss of exon 3
gttcttgctttctctttgcattcaatatgtatttatattctaccttcttttgaaatttactaaactgtgaagtagatagaaagttgacactggaactaaacat-gcaaaaaattggcaagGTTTGTGCAGGCTAATGGCTTGGCAGCTGGGCTTGCAGCTTCTAACCTTGTTCTGTACGCATTTGTTTATACGCCGTTGAAGCAAATACACCCTGTTAAT----------
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gttcgtacaagatcttctctatttatctgcac--atgttatgtgttgttttaaatgtgtttcgtttcagtagttggtatagtactgttattacatctgaacaccgtaaaattttggcaaggtttctgcagGCTAATGGCTTGGCGGCTGGGCTCGCAGCTTCTAATCTTATTCTGTATGCATTTGTATACACACCATTGAAGCAAATACACCCTGTAAATACATGGGTTG
upper sequence: GRMZM2G162776_T03 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA10G43980.1 (Glycine max), 3'ss of exon 5
gttcttgctttctctttgcattcaatatgtatttatattctaccttcttttgaaatttactaaactgtgaagtagatagaaagttg-acactggaactaaacatgcaaaaaattggcaagGTTTGTGCAGGCTAATGGCTTGGCAGCTGGGCTTGCAGCTTCTAACCTTGTTCTGTACGCATTTGTTTATACGCCGTTGAAGCAAATACACCCTGTTAAT-----------------------
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------------------------------------------------------------------------------gtgctttgtgtggagggactaacattgctgctttatgacaaggttattccagactaatatgttagCTGCTGGGCTTGCTGCTTCCAACCTAATTCTGTATGCATTTGTATATACACCCTTGAAGCAGATTCATCTCGTAAATACATGGGTGGGAGCTGTTGTCGG
upper sequence: GRMZM2G162776_T03 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA20G38710.1 (Glycine max), 3'ss of exon 3
----------gttcttgctttctctttgcattcaatatgtatttatattctacctt-----cttttga---aatttacta-aactgtgaagtagatagaaagttgacactggaactaaacatgcaaaaaattggcaagGTTTGTGCAGGCTAATGGCTTGGCAGCTGGGCTTGCAGCTTCTAACCTTGTTCTGTACGCATTTGTTTATACGCCGTTGAAGCAAATACACCCTGTTAAT----------
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gtattgaaacaaatttgcgtactttgttgatt--gtatgcttttctagtgtaacttgtaaacctatgactggatttcttataattgtttgatgtgctttgagtgga----gggactaacattgcagctttatgacaaggttattccagACCAATATGTTAGCTGCTGGGCTTGCTGCTTCCAACCTAATTCTGTATGCATTTGTATATACACCCTTGAAGCAGATTCATCCCATAAATACATGGGTGG
upper sequence: GRMZM2G162776_T03 (Zea mays), 3'ss of exon 3
lower sequence: Vv15s0021g00430.t01 (Vitis vinifera), 3'ss of exon 3
-------------------gttcttgctttctctttgcattcaatatgtatttatattctaccttcttttgaaatttactaaactgtgaagtagatagaaagttgacactggaactaaacatgcaaaaaattggcaagGTTTGTGCAGGCTAATGGCTTGGCAGCTGGGCTTGCAGCTTCTAACCTTGTTCTGTACGCATTTGTTTATACGCCGTTGAAGCAAATACACCCTGTTAAT----------
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gtggtgccataaactctatcgccccgtttcttcatgtcattcaatg-atacaaatgcaaaataatcccttgttgtttgatatcttg---aatattctagtaattgg-actcatgttgcatgttcta-----tgacaaggttgttgcagGCTAACATGTTGGCAGCGGGGCTTGCAGCTTCTAATCTTCTTCTTTACGCCTTTGTATACACTCCATTGAAGCAAATTCATCCAGTTAACACCTGGGTTGMapped 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|91055291|gb|EB165709.1|EB165709EST: TGTGGGCTACAAGTGTTGGAGTTGCAGGAACAGCTTTGTTGGCCTGGAAG GTTTGTGCAGGCTAATGGCTTGGCAGCTGGGCTTGCAGCTTCTAACCTTGT
genomic: TGTGGGCTACAAGTGTTGGAGTTGCAGGAACAGCTTTGTTGGCCTGGAAGgttcttgctt ... aattggcaagGTTTGTGCAGGCTAATGGCTTGGCAGCTGGGCTTGCAGCTTCTAACCTTGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctgtgaagtagatagaaagttgacactggaactaaacatgcaaaaaattggcaagGTTTGTGCAGGCTAATGGCTTGGCAGCTGGGCTTGCAGCTTCTAACCTTGTTCTGTACGCATTTGTTTATACGCCGTTGAAGCAAATACACCCTGTTAAT
aactaaa putative branch site (score: 2)
aaaaaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttcttgctttctctttgcattcaatatgtatttatattctaccttcttttgaaatttactaaactgtgaagtagatagaaagttgacactggaactaaacatgcaaaaaattggcaagGTTTGTGCAGGCTAATGGCTTGGCAGCTGGGCTTGCAGCTTCTAACCTTGTTCTGTACGCATTTGTTTATACGCCGTTGAAGCAAATACACCCTGTTAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA