Sequence
atgc intronic sequence ATGC exonic sequencegtaattatcctaacttcactaaccacttcaattttattcctttggggactgaaattctgcgattcaatcacgaaactgtagGTGCTCTTAGAAGGGCAAATATTGATCCATCGCTGGTCCAAGAGGTGTTCTTTGGGAACGTTCTGAGTGCAAATTTGGGGCAAGCTCCGGCAAGACAGGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0531g00050.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os09g07830.1 (Oryza sativa), 3'ss of exon 3
gtaattatcctaacttcactaaccacttcaattttattcctttggggactgaaattctgc-gattcaatcacgaaactg--tagGTGCTCTTAGAAGGGCAAATATTGATCCATCGCTGGTCCAAGAGGTGTTCTTTGGGAACGTTCTGAGTGCAAATTTGGGGCAAGCTCCGGCAAGACAGGC
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gtgataccagtatcttctcatatgctgtatgtgtaattgttcttttaacccaaatataactaacatcatcagtgtggtgatcagCTGCTCTGAAGAGGGCAAATGTTGATCCAGCCCTTGTGCAAGAGGTCTTCTTTGGTAATGTGTTGAGTGCTAATTTGGGGCAAGCTCCTGCAAGACAAGC
upper sequence: Vv00s0531g00050.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM5G866758_T02 (Zea mays), 3'ss of exon 3
gtaattatcctaacttcactaaccacttcaattttattcctttggggactgaaattctgcgattcaatcacgaaactgt-agGTGCTCTTAGAAGGGCAAATATTGATCCATCGCTGGTCCAAGAGGTGTTCTTTGGGAACGTTCTGAGTGCAAATTTGGGGCAAGCTCCGGCAAGACAGGC
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---------gtgagatccgaatcttctctgcattta--catccgagctctgaa----catggtcatggctgggggctgttagCTGCTCTGGAAAGAGCAAACGTGGATCCAGCCCTCGTGCAGGAGGTCTACTTTGGAAACGTCTTGAGTGCTAATTTGGGGCAAGCTCCTGCAAGGCAAGC
upper sequence: Vv00s0531g00050.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA07G39870.1 (Glycine max), 3'ss of exon 3
----gtaattatc-ctaacttcactaaccacttcaattttattcctttg--gggactg------aaa---ttctgcgattcaatcacgaaactgtagGTGCTCTTAGAAGGGCAAATATTGATCCATCGCTGGTCCAAGAGGTGTTCTTTGGGAACGTTCTGAGTGCAAATTTGGGGCAAGCTCCGGCAAGACAGGC
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gtaaatcactattactaagctatttttctgtttccctttttctttcttaaaaggatcagtcagcaaatgtttatgcaaattc-ttgctcctctgcagGTGCTCTCGAGAGAGCAAATGTTGATCCATCGCTTGTGCAAGAGGTGTTTTTTGGGAATGTTCTTAGTGCCAATTTAGGGCAGGCTCCTGCCAGACAGGC
upper sequence: Vv00s0531g00050.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA17G00910.1 (Glycine max), 3'ss of exon 3
gtaa-ttatcctaacttcactaaccacttcaattttattcctttggggactga---------aattctgcgattcaatcacgaaactgtagGTGCTCTTAGAAGGGCAAATATTGATCCATCGCTGGTCCAAGAGGTGTTCTTTGGGAACGTTCTGAGTGCAAATTTGGGGCAAGCTCCGGCAAGACAGGC
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gtaaatcaccattactaagctattttcct--gtttctttcttaaaaggatcagtcagcaaatatttatggaaaattcttgctcatctgcagCTGCTCTCAAGAGAGCAAATGTTGATCCATCACTCGTGCAAGAGGTGTTTTTTGGGAATGTTCTTAGTGCCAATTTAGGGCAGGCTCCTGCCAGACAGGCMapped 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|37185119|gb|CF604472.1|CF604472EST: TTTCCTTTCGTCTTTATCAGCCACCAAGCTTGGCTCCATAGCTATTCGGG GTGCTCTTAGAAGGGCAAATATTGATCCATCGCTGGTCCAAGAGGTGTTCT
genomic: TTTCCTTTCGTCTTTATCAGCCACCAAGCTTGGCTCCATAGCTATTCGGGgtaattatcc ... gaaactgtagGTGCTCTTAGAAGGGCAAATATTGATCCATCGCTGGTCCAAGAGGTGTTCT
EST:
gi|37186247|gb|CF605600.1|CF605600EST: CTTTATCAGCCACCAAGCTTGGCTCCATAGCTATTCGGC GTGCTCTTAGAAGGGCAAATATTGATCCATCGCTGGTCCAAGAGGTGTTCT
genomic: CTTTATCAGCCACCAAGCTTGGCTCCATAGCTATTCGGGgtaattatcc ... gaaactgtagGTGCTCTTAGAAGGGCAAATATTGATCCATCGCTGGTCCAAGAGGTGTTCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcaattttattcctttggggactgaaattctgcgattcaatcacgaaactgtagGTGCTCTTAGAAGGGCAAATATTGATCCATCGCTGGTCCAAGAGGTGTTCTTTGGGAACGTTCTGAGTGCAAATTTGGGGCAAGCTCCGGCAAGACAGGC
ttttatt 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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gtaattatcctaacttcactaaccacttcaattttattcctttggggactgaaattctgcgattcaatcacgaaactgtagGTGCTCTTAGAAGGGCAAATATTGATCCATCGCTGGTCCAAGAGGTGTTCTTTGGGAACGTTCTGAGTGCAAATTTGGGGCAAGCTCCGGCAAGACAGGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA