Sequence
atgc intronic sequence ATGC exonic sequence...actgaatttgatcatgtctacctttccaatactatctatataagcatggaagaatttaagtagatcagatataatggtgatttttttctttcctctgcagATAAATGAAATACCAAAGCTGACATCTGGTTGCACTGAGTTCATTGAGTCTGCAGAACAGATTTTGGAGGAGAGAAAGATGAACCAAACATTGCTAGCCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0008g01350.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AC235544.1_FGT004 (Zea mays), 3'ss of exon 2
-actgaatttgatcatgtctacctttccaa----tactatctatataagcatggaagaatttaagtagatcagatataatggtgatttttttctttcctctgcagATAAATGAAATACCAAAGCTGACATCTGGTTGCACTGAGTTCATTGAGTCTGCAGAACAGATTTTGGAGGAGAGAAAGATGAACCAAACATTGCTAGCCA
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ctttctatatgat-atgctaacattatagacttctattgttcatgcggccttcgaagaatgatttgaaatgttttaccatgttg----ttcatgcaccattgtagATAGAGGAGATACCAAACTTAACATCTGGCTGCACTGAGTTTGTTGAGTCTGCACAACAAATTCTGGAGGAGAGGAAGCTTAACCAAACATTACTAGCCA
upper sequence: Vv04s0008g01350.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G006781_T03 (Zea mays), 3'ss of exon 2
------actgaatttgatcatgtc-tacctttccaatactatctatataagcatggaagaatttaagtagatcagatataatggtgatttttttctttcctctgcagATAAATGAAATACCAAAGCTGACATCTGGTTGCACTGAGTTCATTGAGTCTGCAGAACAGATTTTGGAGGAGAGAAAGATGAACCAAACATTGCTAGCCA
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ctttctacgtggtatgctaacattatatacttctagcatt---catctgaccttggaagaatg-atttgga--atatttgaccatg-ttgttcatgcaccattgtagATAGAGGAGATACCAAACTTAACATCTGGCTGCACTGAGTTTGTTGAATCCGCACAACAAATTTTGGAGGAGAGGAAGCTTAATCAAACATTACTAGCCA
upper sequence: Vv04s0008g01350.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA02G04920.1 (Glycine max), 3'ss of exon 1
--actgaatttgatcatgtc-tacctttccaat--actatctatataagcatggaagaatttaagtagatcagatataatggtgatttttttctttcctctgcagATAAATGAAATACCAAAGCTGACATCTGGTTGCACTGAGTTCATTGAGTCTGCAGAACAGATTTTGGAGGAGAGAAAGATGAACCAAACATTGCTAGCCA
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ataatttccttctctttgtcataaactcataatgaatttcttgtgtgcgtgtgtatgattataag-----catttgtcattgagtatttatctcctctgtcacagATAAATGAGATCCCAAAGCTGACATCTGGATGCACTGAGTTCATAGAATCTGCTGAGCGGATTTTGGAGAAGAGGAAGATGAACCAAACAATGCTAACTA
upper sequence: Vv04s0008g01350.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA16G22880.1 (Glycine max), 3'ss of exon 1
----actgaatttgatcatgtctacctttccaatactatctatataagcatggaagaatttaagtagatcagatataatggtgatttttttctttcctctgcagATAAATGAAATACCAAAGCTGACATCTGGTTGCACTGAGTTCATTGAGTCTGCAGAACAGATTTTGGAGGAGAGAAAGATGAACCAAACATTGCTAGCCA
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gataatataattctctttttcataaactcataatgaatttcttttgtgtgtgtttgtgattataaacatttgacattgag----tatttatctcctcttcacagATAAATGAGATCCCGAAGCTGACATCTGGATGCACTGAGTTCATAGAATCTGCTGAGCAGATTTTGGAGAAGAGGAAGATGAACCAAACAATGCTAACTA
upper sequence: Vv04s0008g01350.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT5G11980.1 (Arabidopsis thaliana), 3'ss of exon 2
-actgaatttgatcatgtctacctttccaatactatctatataagcatggaagaatttaagtagatcagatataatggtgat-ttttttctttcctctgcagATAAATGAAATACCAAAGCTGACATCTGGTTGCACTGAGTTCATTGAGTCTGCAGAACAGATTTTGGAGGAGAGAAAGATGAACCAAACATTGCTAGCCA
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tatagaaaac-atcctctg-actttagcagttgcatcttcggagatgttttattttctttcaaattttgatgtcaaagttctgtacttttcaccttttgtagATTGGCGAAGTCCCAAAACTAACGTCTGGTTGCACTGAATTTATCGATTCTGCTGAGAATATTTTGGAGAAGAGGAAGATGAACCAAGCATTGCTGGCAAMapped 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|110389066|gb|EC953878.1|EC953878EST: TAGCAATTCGAGAGGAAGTATCTTCTGTGGATAAACACCTAGAGTCTCTG ATAAATGAAATACCAAAGCTGACATCTGGTTGCACTGAGTTCATTGAGTCT
genomic: TAGCAATTCGAGAGGAAGTATCTTCTGTGGATAAACACCTAGAGTCTCTGgtaaatttcc ... tcctctgcagATAAATGAAATACCAAAGCTGACATCTGGTTGCACTGAGTTCATTGAGTCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atggaagaatttaagtagatcagatataatggtgatttttttctttcctctgcagATAAATGAAATACCAAAGCTGACATCTGGTTGCACTGAGTTCATTGAGTCTGCAGAACAGATTTTGGAGGAGAGAAAGATGAACCAAACATTGCTAGCCA
tgatttttttctttcc CT-rich tract
tgatttttttcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
actgaatttgatcatgtctacctttccaatactatctatataagcatggaagaatttaagtagatcagatataatggtgatttttttctttcctctgcagATAAATGAAATACCAAAGCTGACATCTGGTTGCACTGAGTTCATTGAGTCTGCAGAACAGATTTTGGAGGAGAGAAAGATGAACCAAACATTGCTAGCCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - -tcatgtc
- - - - - - - - - - cctttcc
- - - - - - - - - - - - - - - - - - - - - - - -ggaagaa