Sequence
atgc intronic sequence ATGC exonic sequence...aaatttttagtttcctttttttccaacctcgctggattatgaaatggagccttaatgaaaaaagttcaaactcaattttggtttacatacctttttgcagACGATATACAGGAACTATCAAAAACTCACTCTCCAGGAGAGCCCAGGTATCGTGCCAGCAGGTCGTCTTCCTAGATACAAGGAAGTGATACTCTTGAACG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0150g00390.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os11g29380.1 (Oryza sativa), 3'ss of exon 7
-----------------------------aaatttttagtttcctttttttccaacctcgctggattatgaaatggagcctta-atgaaaaaagttcaaactcaattttggtttacatacct-ttttgcagACGATATACAGGAACTATCAAAAACTCACTCTCCAGGAGAGCCCAGGTATCGTGCCAGCAGGTCGTCTTCCTAGATACAAGGAAGTGATACTCTTGAACG
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gtaagttgcctgggacgatggtagttctgatacatttgggctttcttctctgtcttaatgcatgaacatgtttttggttctaatattcaaactgttctcttttaataacagttgatttatttgtctcacagACCATATATAGGAACTACCAGAAACTCACTCTTCAGGAAAGCCCAGGAATTGTTCCTGCTGGCAGGCTTCCAAGATACAAGGAAGTGATACTTCTGAATG
upper sequence: Vv01s0150g00390.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G139894_T01 (Zea mays), 3'ss of exon 7
---------------------------------------aaatttttagtttcctttttttccaacctcgctggattatgaaatggagccttaatgaaaaaagttcaaact--caattttggtttacataccttttt----gcagACGATATACAGGAACTATCAAAAACTCACTCTCCAGGAGAGCCCAGGTATCGTGCCAGCAGGTCGTCTTCCTAGATACAAGGAAGTGATACTCTTGAACG
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gcatgttaccttaaacacgttttcacagtactgtgttattgctatgtgatatcgatatagttttctgtatgtgggctgt--attgttatcctagtaaaattaattgtttcttccaatcttaatacttgaacttttttccatgcagACTATATATAGGAACTACCAGAAACTCACTCTTCAGGAAAGCCCAGGAATTGTTCCTGCTGGAAGGCTTCCCAGATACAAGGAAGTCATACTTCTGAATG
upper sequence: Vv01s0150g00390.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA17G03920.1 (Glycine max), 3'ss of exon 6
---------------------------------------------------------------------------------aaatttttagtttcctttttttccaacctcgctggattatgaa-atggagccttaatgaaaaaagttcaaactcaattttggtttacatac-ctttttgcagACGATATACAGGAACTATCAAAAACTCACTCTCCAGGAGAGCCCAGGTATCGTGCCAGCAGGTCGTCTTCCTAGATACAAGGAAGTGATACTCTTGAACG
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gtacaaagttttcgaacccttttggatgcacatattctgctgagtgctgatcgtcatttcaactaggtcaaatgattacaaaagacatttgcattgagatgttgcaaaataagttgatcatcattattttaaaagactaaaaggtaaataaactcattttctttctttctatgctccttgtagACAATTTATAGGAATTTTCAGAAGCTTACCCTCCAAGAGAGTCCAGGGATAGTTCCTGCAGGTCGACTTCCAAGATACAAGGAAGTGATACTATTAAATG
upper sequence: Vv01s0150g00390.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA07G36680.1 (Glycine max), 3'ss of exon 6
---------------------------------------------------------------------------------aaatttttagtttcctttttttccaacctcgctggattatgaaatggagccttaatgaaaaaagt--tcaaactcaattttggtttacatacctttttgcagACGATATACAGGAACTATCAAAAACTCACTCTCCAGGAGAGCCCAGGTATCGTGCCAGCAGGTCGTCTTCCTAGATACAAGGAAGTGATACTCTTGAACG
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gtacaatgtttacaaaaccttttggatgcacatatcctgctgagtattgatgttcatttcttctcggtcaaatgattacaaaagacatttgcattgagatgttgcaaaataagttgattatcat-tattttaaaagacaaaaaggtaattaaactcattgttttctttctatgcttgttgtagACAATTTATAGGAATTTTCAGAAGCTTACCCTCCAAGAGAGTCCAGGAATAGTCCCTGCGGGTCGACTTCCAAGATACAAGGAAGTGATACTATTGAATGMapped 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|37189746|gb|CF609095.1|CF609095EST: CTTGCCCAGAATGCCAATCAAAAGGACCATTCACTGTCAATATCGAGCAG ACGATATACAGGAACTATCAAAAACTCACTCTCCAGGAGAGCCCAGGTATC
genomic: CTTGCCCAGAATGCCAATCAAAAGGACCATTCACTGTCAATATCGAGCAGgtgaagtttt ... ctttttgcagACGATATACAGGAACTATCAAAAACTCACTCTCCAGGAGAGCCCAGGTATC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggagccttaatgaaaaaagttcaaactcaattttggtttacatacctttttgcagACGATATACAGGAACTATCAAAAACTCACTCTCCAGGAGAGCCCAGGTATCGTGCCAGCAGGTCGTCTTCCTAGATACAAGGAAGTGATACTCTTGAACG
ccttaat putative branch site (score: 4)
taccttttt putative PPT
ttaatgaaaaaagtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaatttttagtttcctttttttccaacctcgctggattatgaaatggagccttaatgaaaaaagttcaaactcaattttggtttacatacctttttgcagACGATATACAGGAACTATCAAAAACTCACTCTCCAGGAGAGCCCAGGTATCGTGCCAGCAGGTCGTCTTCCTAGATACAAGGAAGTGATACTCTTGAACG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - -caacctc
- - - - - - - - - - - - - - - - - - - - -aaatgga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - gaaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - caaactc