Sequence
atgc intronic sequence ATGC exonic sequencegtatgtagtgaagtatgtaagtctgatttaaatgacttctaatatctgtgaaatatgtatgtcttttgcagCCACTACCTTGACGAGCTGGCATCTGCTGGTTACATTCTGCTCCCTTCATGTAGCATTATGGATGAAGTTCTTTGAGCATAAGCCTTTTGATTCAAGAAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G063253_T08 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os05g07670.1 (Oryza sativa), 3'ss of exon 2
--------------------gtatgtagtgaagtatgtaagtct------gatttaaatgacttctaatatctgtg-aaatatgta--tgtcttttgcagCCACTACCTTGACGAGCTGGCATCTGCTGGTTACATTCTGCTCCCTTCATGTAGCATTATGGATGAAGTTCTTTGAGCATAAGCCTTTTGATTCAAGAAC
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ttcttttctcaaatgcattgcaatgtattagtgtttgtagaatttacatgaatataaatgacaccaactgtttttccatacatggaattgtattttgcagCCACTACCTTGACGAGTTGGCATCTTCTTGTCACATTTTGCTCCCTCCATGTAGCATTATGGATGAAGTTCTTCGAGCACAAGCCTTTCGACTCGAGAAC
upper sequence: GRMZM2G063253_T08 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA06G14970.2 (Glycine max), 3'ss of exon 2
-------------gtatgtag--tgaagtatgtaagtctg-atttaaatg-act-tctaatatctg--------tgaaatatgtatgtcttt---tgcagCCACTACCTTGACGAGCTGGCATCTGCTGGTTACATTCTGCTCCCTTCATGTAGCATTATGGATGAAGTTCTTTGAGCATAAGCCTTTTGATTCAAGAAC
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ttatttccatgatatatgcaaatttgagctttcatgtttacattttaatgtactgtctgagatttacaagtttttgaaatttgtgctttttgatatgcagCTACAACTTTGACCAGCTGGCATCTGCTTGTCACATTTTGTTCCCTTCATGTGGCGCTCAAAATGAGATTCTTTGAGCACAAACCTTTTGAGCAGAAAGC
upper sequence: GRMZM2G063253_T08 (Zea mays), 3'ss of exon 1
lower sequence: AT2G30460.1 (Arabidopsis thaliana), 3'ss of exon 3
----------------------------gtatgtagtgaagtatgtaagtc--tgatttaaatgacttctaatatctgtgaaatatgtatgtcttttgcagCCACTACCTTGACGAGCTGGCATCTGCTGGTTACATTCTGCTCCCTTCATGTAGCATTATGGATGAAGTTCTTTGAGCATAAGCCTTTTGATTCAAGAAC
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tctttaccatgggtgaactccattcatgataacagtttatgcatggaatctcatagtctatctgtgtgtaatcatttattactt-tatattgaacttacagCAACTACTTTGACAAGCTGGCATCTTTTGGTGACATTTTGTTCACTTCATGTGGCATTATGGATGAAGTTTTTTGAGCACAAGCCTTTTGATCCACGAGC
upper sequence: GRMZM2G063253_T08 (Zea mays), 3'ss of exon 1
lower sequence: AT1G06890.2 (Arabidopsis thaliana), 3'ss of exon 2
-----------------------------gtatgtagtgaagtatgtaagtctgatttaaatgacttctaatatctgtgaaatatgtatgtcttttgcagCCACTACCTTGACGAGCTGGCATCTGCTGGTTACATTCTGCTCCCTTCATGTAGCATTATGGATGAAGTTCTTTGAGCATAAGCCTTTTGATTCAAGAAC
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cattttgatgtctgtgttgccataacagcttttatgtcatcttatgcaattttgatctcataagctatctgttcttactcttgttattttgtatgtacagCGACTACTTTGACAAGTTGGCATCTTTTGGTCACATTTTGTTCCCTTCATGTGGCATTATGGATGAAGATGTTCGAACACAAGCCTTTTGATCCACGAGC
upper sequence: GRMZM2G063253_T08 (Zea mays), 3'ss of exon 1
lower sequence: Vv06s0004g07960.t01 (Vitis vinifera), 3'ss of exon 3
--------------------gtatgtagt-gaagtatgtaagtctgattt---aaatgacttctaatatctg---tgaaatatgta--tgtcttttgcagCCACTACCTTGACGAGCTGGCATCTGCTGGTTACATTCTGCTCCCTTCATGTAGCATTATGGATGAAGTTCTTTGAGCATAAGCCTTTTGATTCAAGAAC
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agtgaaaacttttcctccattcatatatttgctcttttcacagctgctttgttaatttagtcttgagttctcattttaactacccaactgtcgattgcagCCACAACTTTAACTAGCTGGCATCTTCTGGTCACATTTTGTTCTCTTCATGTGGCACTATGGATGAAATTATTTGAGCACAAGCCTTTTGACGCTAGAGC
upper sequence: GRMZM2G063253_T08 (Zea mays), 3'ss of exon 1
lower sequence: Vv13s0067g02970.t01 (Vitis vinifera), 3'ss of exon 3
-------------------gtatgtagtgaagta--tgta-agtctgatttaaatgacttctaatatctgtgaaatat------gtatgtcttt-tgcagCCACTACCTTGACGAGCTGGCATCTGCTGGTTACATTCTGCTCCCTTCATGTAGCATTATGGATGAAGTTCTTTGAGCATAAGCCTTTTGATTCAAGAAC
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gctattaggcggtaacaaagcactaactataatgattgtatactttgataagatttgcttctacttgtggcattatcttctgtcatccgtctttgtacagCTACTACATTGACAAGCTGGCATCTTCTGGTCACTTTCTGTTCTCTTCATGTGGCTCTATGGATGAAATTGTTTGAACACAAACCATTTGATGCAAAAGCMapped 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|211269133|gb|FK952052.1|FK952052EST: GTTCTTACATTTGTCGACGGACAGAGTACTAGATCTTATATTATCAACAT CCACTACCTTAACGAGCTGGCATCTGCTGGTTACATTCTGCTCCCTTCATG
genomic: GTTCTTACATTTGTCGACGGACAGAGTACTAGATCTTATATTATCAACATgtatgtagtg ... tcttttgcagCCACTACCTTGACGAGCTGGCATCTGCTGGTTACATTCTGCTCCCTTCATG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtaagtctgatttaaatgacttctaatatctgtgaaatatgtatgtcttttgcagCCACTACCTTGACGAGCTGGCATCTGCTGGTTACATTCTGCTCCCTTCATGTAGCATTATGGATGAAGTTCTTTGAGCATAAGCCTTTTGATTCAAGAAC
ttctaat putative branch site (score: 2)
tgtctttt putative PPT
tgatttaaat 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
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gtatgtagtgaagtatgtaagtctgatttaaatgacttctaatatctgtgaaatatgtatgtcttttgcagCCACTACCTTGACGAGCTGGCATCTGCTGGTTACATTCTGCTCCCTTCATGTAGCATTATGGATGAAGTTCTTTGAGCATAAGCCTTTTGATTCAAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC