Sequence
atgc intronic sequence ATGC exonic sequencegtagtcatcatttttaaatgcacaattgtgggctcacaatgcatttttctcaactctatctagaagactgaggtacaatgtgatgtaaaaatgtaaatggaaatgcccccttctgatggttacatactaaatttatcatcagATGAGTGAAGAAGAGATCTCTTTTCTAACAAAAGGAGAGGATCCATATGATGATGCTGTTGTTCGTAAGTTCTACCACCCAAATCTTAAATTGCTTCTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0006g01410.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G072091_T01 (Zea mays), 3'ss of exon 4
gtagtcatcatttttaaatgcacaattgtgggctcacaatgcatttttctcaactctatctagaagactgaggtacaatgtgatgtaaaaatgtaaatggaaatgcccccttctgatggttacatactaaatttatcatcagATGAGTGAAGAAGAGATCTCTTTTCTAACAAAAGGAGAGGATCCATATGATGATGCTGTTGTTCGTAAGTTCTACCACCCAAATCTTAAATTGCTTCTTG
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---------------------------------------------------gttgctattctgtaaattatggttcagc----tgtagaggcaaatcttg---tgttaatttgtgcattttgcttctc---ttttcaaaaagGTAAGTGAAGAGGAGGTTTCCTTTCTCACAAATGGAGAGGATCCTTATGATGATGCCGTTGTAAAGAAACTTATGCACTCAAACCTGAAGTTGCTTCTTG
upper sequence: Vv14s0006g01410.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA02G41320.1 (Glycine max), 3'ss of exon 4
gtagtcatcatttttaaatgcacaattgtgggctc----acaatgcatttttctcaactctatct---agaagactgaggtacaatgtgatgtaaaaatgtaaatggaaatgcccccttctgatggttacatactaaatttatcatcagATGAGTGAAGAAGAGATCTCTTTTCTAACAAAAGGAGAGGATCCATATGATGATGCTGTTGTTCGTAAGTTCTACCACCCAAATCTTAAATTGCTTCTTG
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gttcctttcctatcaatagggcagaatatatattctatagcaatagactttttcttgttccctttttcaggagtacagattacaagggaatgtggaataatagactacaataccatct-ctaacaacta-atctgataattat--tcagATAAGTGAAGAAGAGATTTCTTTTCTTACAAAAGGTGAGAACCCATATGATGATGCTGTTGTTCATAAACTATTCCATCCAAGCCTCAAGCTACTCCTAG
upper sequence: Vv14s0006g01410.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA14G39670.1 (Glycine max), 3'ss of exon 2
--------gtagtcatcatttttaaatgcacaattgtgggctcacaatgcatttttctcaactctatctagaagactgaggtacaatgtgatgtaaaaatgtaaatggaaatgcccccttctgatggttacatactaaatttatcatcagATGAGTGAAGAAGAGATCTCTTTTCTAACAAAAGGAGAGGATCCATATGATGATGCTGTTGTTCGTAAGTTCTACCACCCAAATCTTAAATTGCTTCTTG
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gttcctctcctatcaatagggccgaatgtatattctttagcaatagactttttcttgttccctttttcaagagtacagat-tacaagggaatggaaaaaaacagacaacaataccatct-ctaacaacca-atctgataattat--tcagATAAGTGAAGACGAGATTTCTTTTCTTACAAAAGGTGAGGACCCATATGATGATGCTGTCGTTCATAAACTATTCCATCCAAACCTCAAGCTACTCCTAGMapped 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|110376513|gb|EC941577.1|EC941577EST: GTGCCAGGGAAGGCATCCTGAGCATATGGAATACTGCTGATATCATTAAG ATGAGTGAAGAAGAGATCTCTTTTCTAACAAAAGGAGAGGATCCATATGAT
genomic: GTGCCAGGGAAGGTATCCTGAGCATATGGAATACTGCTGATATCATAAAGgtagtcatca ... ttatcatcagATGAGTGAAGAAGAGATCTCTTTTCTAACAAAAGGAGAGGATCCATATGAT
EST:
gi|30136156|gb|CB921494.1|CB921494EST: GTGCCAGGGAAGGTATCCTGAGCATATGGAATACTGCTGATATCATTAAG ATGAGTGAAGAAGAGATCTCTTTTCTAACAAAAGGAGAGGATCCATATGAT
genomic: GTGCCAGGGAAGGTATCCTGAGCATATGGAATACTGCTGATATCATAAAGgtagtcatca ... ttatcatcagATGAGTGAAGAAGAGATCTCTTTTCTAACAAAAGGAGAGGATCCATATGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaaatgtaaatggaaatgcccccttctgatggttacatactaaatttatcatcagATGAGTGAAGAAGAGATCTCTTTTCTAACAAAAGGAGAGGATCCATATGATGATGCTGTTGTTCGTAAGTTCTACCACCCAAATCTTAAATTGCTTCTTG
tactaaa putative branch site (score: 1)
ttacatactaaattta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagtcatcatttttaaatgcacaattgtgggctcacaatgcatttttctcaactctatctagaagactgaggtacaatgtgatgtaaaaatgtaaatggaaatgcccccttctgatggttacatactaaatttatcatcagATGAGTGAAGAAGAGATCTCTTTTCTAACAAAAGGAGAGGATCCATATGATGATGCTGTTGTTCGTAAGTTCTACCACCCAAATCTTAAATTGCTTCTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT