Sequence
atgc intronic sequence ATGC exonic sequencegtatatgctctatggtttctttacacttgagttgtctcctgttctttttctccaaaaggtgtcagtcctcctcggcattgcccttacagataactattgtacagATTGCTGCTGCCCACATCTGTTACTTAGTTGCTGAAGCAAACTTTGAGTCATATTCAGACAGTGCAAGACTATGTCTTATTGGTGCAGATCATTGGAAAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0021g02730.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA01G41800.1 (Glycine max), 3'ss of exon 8
gtatatgctctatggtttctttacacttgagttgtctcctgttctttttctccaaaaggtgtcagtcctcctcggcattgcc-cttacagataactattgtac-agATTGCTGCTGCCCACATCTGTTACTTAGTTGCTGAAGCAAACTTTGAGTCATATTCAGACAGTGCAAGACTATGTCTTATTGGTGCAGATCATTGGAAAT
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--------------------gtacaatt---ctgtcttttatttattttctttaatgact-ttggtacttttccattctgcttctcatttaagacacttattttagATTACTGCCGCACACATCTGCTATTTAGTTGCTGAAGCAAACTTTGAGTCATACTCAGATAGCGCAAGACTCTGTCTAATTGGAGCAGATCACTGGAAAT
upper sequence: Vv15s0021g02730.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA01G41790.1 (Glycine max), 3'ss of exon 10
gtatatgctctatggtttctttacacttgagttgtctcctgttctttttctccaaaaggtgtcagtcctcctcggcattgcccttacagataactattgtac-agATTGCTGCTGCCCACATCTGTTACTTAGTTGCTGAAGCAAACTTTGAGTCATATTCAGACAGTGCAAGACTATGTCTTATTGGTGCAGATCATTGGAAAT
|||| ||| | ||| | || |||||| || | | | | || | || | | ||| || | ||||| |||| || |||||||| || ||||||||||||||||||||||||||||| ||||| || |||||||| ||||| ||||| |||||||| |||||||
--------------------gtacagttgt-ctatcttttatttattttctttaatgacttttgtactttttcattctgcttctcatttaagactcttattttagATTACTGCCGCACACATCTGCTATTTAGTTGCTGAAGCAAACTTTGAGTCATACTCAGATAGCGCAAGACTCTGTCTAATTGGAGCAGATCACTGGAAAT
upper sequence: Vv15s0021g02730.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA11G03590.1 (Glycine max), 3'ss of exon 11
gtatatgctctatggtttctttacacttgagttgtctcctgttctttttctccaaaaggtgtcagtcctcctcggcattgcccttacagataactattgtac-agATTGCTGCTGCCCACATCTGTTACTTAGTTGCTGAAGCAAACTTTGAGTCATATTCAGACAGTGCAAGACTATGTCTTATTGGTGCAGATCATTGGAAAT
|||| ||| ||| | || |||||| || | | || | || | || | | ||| || | ||||| |||| || |||||||| || |||||||||||||||||||| |||||||| ||||| ||||||||||| ||| | ||||| |||||||| |||||||
--------------------gtacagttgt-caatcttttatttattttctttaatgactttt-gtatttttcaatctgcttctcatttaagactcttattttagATTACTGCCGCACACATCTGCTATTTAGTTGCTGAAGCAAACTTCGAGTCATACTCAGATAGTGCAAGACTCTGTTTAATTGGAGCAGATCACTGGAAAT
upper sequence: Vv15s0021g02730.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA11G03580.1 (Glycine max), 3'ss of exon 11
gtatatgctctatggtttctttacacttgagttgtctcctgttctttttctccaaaaggtgtcagtcctcctcggcattgcc-cttacagataactattgtac-agATTGCTGCTGCCCACATCTGTTACTTAGTTGCTGAAGCAAACTTTGAGTCATATTCAGACAGTGCAAGACTATGTCTTATTGGTGCAGATCATTGGAAAT
|||| || ||||| | || | |||| || | | | || ||| || | | || || | ||||| |||| || |||||||| || ||||||||||||||||| || |||||||| ||||| || |||||||| ||||| ||||| |||||||| |||||||
--------------------gtacagtt---ctgtcttttatttatcttctttaatgacttttgtactctttccattctgcttctcatttaagacacttattttagATTACTGCCGCACACATCTGCTATTTAGTTGCTGAAGCAAATTTCGAGTCATACTCAGATAGCGCAAGACTCTGTCTAATTGGAGCAGATCACTGGAAAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctccaaaaggtgtcagtcctcctcggcattgcccttacagataactattgtacagATTGCTGCTGCCCACATCTGTTACTTAGTTGCTGAAGCAAACTTTGAGTCATATTCAGACAGTGCAAGACTATGTCTTATTGGTGCAGATCATTGGAAAT
agataac putative branch site (score: 3)
ataactatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatatgctctatggtttctttacacttgagttgtctcctgttctttttctccaaaaggtgtcagtcctcctcggcattgcccttacagataactattgtacagATTGCTGCTGCCCACATCTGTTACTTAGTTGCTGAAGCAAACTTTGAGTCATATTCAGACAGTGCAAGACTATGTCTTATTGGTGCAGATCATTGGAAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA