Sequence
atgc intronic sequence ATGC exonic sequence...catagttgcatttggcaacttcagacatgtgtagtgctctgtgtttatcttatatataatcggtatctagagattcatgcttgttggtctttgcttccagGTTGTACCACTCTTAATGAAAGCTATCGGATGGCAAGGTGGAAGCATACTAGCTCTTGAAACACTGAAACGTGTTGTGGTTGCTGGAAATCGAGCTAGGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0016g04420.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: LOC_Os10g42439.1 (Oryza sativa), 3'ss of exon 18
---catagttgcatt--tggcaacttcagacat-gtgtagtgctctgtgtttatcttatatataatcggtatctagagattcatgcttgttggtctttgcttccagGTTGTACCACTCTTAATGAAAGCTATCGGATGGCAAGGTGGAAGCATACTAGCTCTTGAAACACTGAAACGTGTTGTGGTTGCTGGAAATCGAGCTAGGG
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aaccaaaaatgaagtcctatccaattgacgcatagcacattatttcatgaatggcatataaagacc---tacctaaatatt--ttcttgctt-caactgtttgcagGTTGTTCCATTGCTTATGAAAGCAATTGGATGGCAAGGTGGAAGTATACTGGCACTAGAGACACTAAAGCGTGTTGTTGGTGCTGGCAATCGGGCTAGAG
upper sequence: Vv11s0016g04420.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: GRMZM2G001895_T01 (Zea mays), 3'ss of exon 12
catagttgcatttggcaacttcagacatgtgtagtgctctgtgtttatcttatatataatcggtatctagagattcatgcttgttggtctttgcttc----------cagGTTGTACCACTCTTAATGAAAGCTATCGGATGGCAAGGTGGAAGCATACTAGCTCTTGAAACACTGAAACGTGTTGTGGTTGCTGGAAATCGAGCTAGGG
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------cactttaaaaaaatccag-tatgatcaattcatagcat--attctgt-cacaagtggaatctaaggacccatcataaccatttattgcttgaactgtcatacagGTTGTACCACTGCTTATGAAAGCAATTGGATGGCAAGGTGGAAGTATACTGGCATTGGAGACATTAAAGCGTGTAGTTGGTGCTGGTAATCGGGCTCGTG
upper sequence: Vv11s0016g04420.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: GLYMA05G08040.1 (Glycine max), 3'ss of exon 18
catagttgcattt-ggcaacttcag-acatgtgtagtgctctgtgtttatcttatatataatcggtatctagagattcatgcttgttggtctttgcttccagGTTGTACCACTCTTAATGAAAGCTATCGGATGGCAAGGTGGAAGCATACTAGCTCTTGAAACACTGAAACGTGTTGTGGTTGCTGGAAATCGAGCTAGGG
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-ctagtttctttttgataatattagtatgcttttgttgctgtacttccattatttatatatataacttgcattgaccta-atttttaaatttcttcttccagGTTGTTCCACTGCTAATGAAAGCTATAGGGTGGCAAGGTGGAAGCATTTTAGCTCTTGAGACTCTAAAACGTGTTGTGGTTGCAGGAAACCGAGCCAGGG
upper sequence: Vv11s0016g04420.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: GLYMA17G12950.1 (Glycine max), 3'ss of exon 19
catagttgcatttggcaacttcagacatgtgtagtgctctgtgtttatcttatatataatcggtatctagagattcatgc--ttgtt--ggtctttgcttccagGTTGTACCACTCTTAATGAAAGCTATCGGATGGCAAGGTGGAAGCATACTAGCTCTTGAAACACTGAAACGTGTTGTGGTTGCTGGAAATCGAGCTAGGG
|| || |||| | | | | || | || || ||| | | | | | | | | | | || || ||||| | | | |||||||||||| || || |||||||||| || || ||||||||||||||||| |||||||||| || || ||||||||||||||||| ||||| ||||| ||||
-ctacttccattatctgtatatata-acttgcattgacctaatttttaactgtctttgacca--aacaaaaattttattttgttgtttaaatttcttcttccagGTTGTTCCGCTGCTAATGAAAGCCATAGGGTGGCAAGGTGGAAGCATTTTAGCTCTTGAGACTCTAAAACGTGTTGTGGTTGCCGGAAACCGAGCCAGGG
upper sequence: Vv11s0016g04420.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: GLYMA05G08040.2 (Glycine max), 3'ss of exon 19
catagttgcatttggcaacttcagacatgtgtagtgctctgtgtttatcttatatataatcggtatctagagattcatgcttgttggtctttgcttccagGTTGTACCACTCTTAATGAAAGCTATCGGATGGCAAGGTGGAAGCATACTAGCTCTTGAAACACTGAAACGTGTTGTGGTTGCTGGAAATCGAGCTAGGG-------------------------
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---------------------------------------------------------------------------------------------------------------------------------gtggcaaggtggaagcattttagctcttgagactctaaaacgtgttgtggttgcaggaaaccgagccagGGATGCTCTTGTTGCGCAGGGACTTAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatcttatatataatcggtatctagagattcatgcttgttggtctttgcttccagGTTGTACCACTCTTAATGAAAGCTATCGGATGGCAAGGTGGAAGCATACTAGCTCTTGAAACACTGAAACGTGTTGTGGTTGCTGGAAATCGAGCTAGGG
tctttgcttcc CT-rich tract
tatatataat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
catagttgcatttggcaacttcagacatgtgtagtgctctgtgtttatcttatatataatcggtatctagagattcatgcttgttggtctttgcttccagGTTGTACCACTCTTAATGAAAGCTATCGGATGGCAAGGTGGAAGCATACTAGCTCTTGAAACACTGAAACGTGTTGTGGTTGCTGGAAATCGAGCTAGGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - -gcatttg
- - - - - - - -caacttc
- - - - - - - - - - - - -catgtgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tcatgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgttggt