Sequence
atgc intronic sequence ATGC exonic sequence...tttattttgaaagtgttgattgcctcttcatcatataattaacctttttacttgttttgtttgcatcaaaattgttatggtgatggcacatttactttagATGCAAGAGACAGCTTTGAGATCAATGCCTGATGTTGTTGTGGCTACCCCGGGACGGATGATAGATCATTTACGCAATTCCATGTCTGTGGATTTGGAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g14540.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os12g29660.1 (Oryza sativa), 3'ss of exon 5
tttattttgaaagtgttgattgcctcttcatcatataattaacctttttacttgttttgtttgcatcaaaattgttatggtgatggcacatttact-ttagATGCAAGAGACAGCTTTGAGATCAATGCCTGATGTTGTTGTGGCTACCCCGGGACGGATGATAGATCATTTACGCAATTCCATGTCTGTGGATTTGGAAG
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-acatgtctgattgtttgcatgcctttttctattatcctttattgtattttctgcctagtttctgggttaaatgctgacagaatgatgcataccttaccagGTACAAGAGGTAGCTTTAAGGTCAATGCCTGACATTGTTGTAGCTACTCCTGGGCGTATAATAGATCATCTACGCAATTCACTTTCCGTTGGGCTTGAAG
upper sequence: Vv18s0001g14540.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA18G11950.1 (Glycine max), 3'ss of exon 5
----tttattttgaaagtgttgattgcctct-tcatcatataattaacctttttacttgttttgtttgcatcaaaattgttatggtgatggcacatttactttagATGCAAGAGACAGCTTTGAGATCAATGCCTGATGTTGTTGTGGCTACCCCGGGACGGATGATAGATCATTTACGCAATTCCATGTCTGTGGATTTGGAAG
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caatgtggcttttacagctttaaaaattcccactattatctagttgattgcaccctttgctatttatttat-----tctttaaaaaaggtgttttctcatcctagGTGCAAGAGGCTGCTTTGAGAACAATGCCAGACATTGTTGTGGCTACTCCAGGACGCATGATAGACCATTTACGCAATGCTATGTCCGTGGATTTGGATG
upper sequence: Vv18s0001g14540.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA02G25240.1 (Glycine max), 3'ss of exon 5
tttattttgaaagtgttgattgcctcttcatcatataattaacctttttacttgttttgtttgcatcaaaatt-gtta--tggtgatggcacattt--actttagATGCAAGAGACAGCTTTGAGATCAATGCCTGATGTTGTTGTGGCTACCCCGGGACGGATGATAGATCATTTACGCAATTCCATGTCTGTGGATTTGGAAG
||| ||| | | | | | | | | | | | ||| | | | || ||| || | |||| || | ||| |||||||| | ||||||||| ||||||| || ||||||||||||| || ||||| |||||||| |||||||||||| | ||||| ||||||||||| |
-----tttaaaaattcccactattatctagttgattggtaacgcaggtaatgctgattgcctcctttaatatttattgtttaaaaatggtgttttctcatcctagGTGCAAGAGGCTGCTTTGAGAACAATGCCAGACATTGTTGTGGCTACTCCAGGACGCATGATAGACCATTTACGCAATGCTATGTCCGTGGATTTGGATG
upper sequence: Vv18s0001g14540.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA09G15220.1 (Glycine max), 3'ss of exon 4
tttattttgaaagtgttgattgcctcttcatcatataattaac-ctttttacttgttttgtttgcatcaaaatt---gttatggtgatggcacattt--actttagATGCAAGAGACAGCTTTGAGATCAATGCCTGATGTTGTTGTGGCTACCCCGGGACG------GATGATAGATCATTTACGCAATTCCATGTCTGTGGATTTGGAAG
| | ||| | | | | | ||| |||| | | | ||| | | | || ||| | | |||| || | ||| |||||||| | ||||||||| ||||||| || ||||||||||||| || ||||| |||||||| |||||||||||| | |||||||||||||
-----tataaaaagttccactattatctagttg-ataggtaacgcaggtaatgcagattgcctcctttaatatttattctttaaaaatggtgttttctcatcctagGTGCAAGAGGCTGCTTTGAGAACAATGCCAGACATTGTTGTGGCTACTCCAGGACGCATGAATATGATAGACCATTTACGCAATGCTATGTCTGTGGATT------
upper sequence: Vv18s0001g14540.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT4G16630.1 (Arabidopsis thaliana), 3'ss of exon 5
----------------------------tttattttgaaagtgttgattgcctcttcatcatataattaacctttttacttgttttgtttgc----atcaaaattgttatggtgatggcacatttacttt----------agATGCAAGAGACAGCTTTGAGATCAATGCCTGATGTTGTTGTGGCTACCCCGGGACGGATGATAGATCATTTACGCAATTCCATGTCTGTGGATTTGGAAG
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gtatgtatttatctttctctaaggatgtatttgtctgtgtacactatttgatgtttgagaacaagcttattttctctctgagaatcgtttcttaaaatgggaatagcaagattgctaaaatctttaatgtttcttgtgtaagGAGCAAGAGGTGGTTCTGAGGTCTATGCCAGATATTGTTGTGGCGACTCCTGGACGTATGATAGATCATTTGCGTAATTCTATGTCTGTTGATTTGGATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttacttgttttgtttgcatcaaaattgttatggtgatggcacatttactttagATGCAAGAGACAGCTTTGAGATCAATGCCTGATGTTGTTGTGGCTACCCCGGGACGGATGATAGATCATTTACGCAATTCCATGTCTGTGGATTTGGAAG
tttacttt CT-rich tract
atcaaaattgttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttattttgaaagtgttgattgcctcttcatcatataattaacctttttacttgttttgtttgcatcaaaattgttatggtgatggcacatttactttagATGCAAGAGACAGCTTTGAGATCAATGCCTGATGTTGTTGTGGCTACCCCGGGACGGATGATAGATCATTTACGCAATTCCATGTCTGTGGATTTGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - cctcttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcaaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtgatgg