Sequence
atgc intronic sequence ATGC exonic sequencegtaagaagcatctgtctaaaatttaaaagcttctagcttttccagtcccttccaaacaaggtgtaaactttttttcatctgtatctaaattccagattttgaattatgaatcagGTTGGGTGGATATATGGCTCTGTTACAGAGGATATATTAACAGGATTCAAGATGCAATGCCATGGTTGGCGATCAGTGTACTGCATACCCAAGAGGCCGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0072g00370.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GRMZM5G840940_T01 (Zea mays), 3'ss of exon 3
------------------------------gtaagaagcatct-gtctaaaatttaaaagcttctagcttttccagtcccttccaaacaaggtgtaaactt----tttttcatctgtatctaaattc--cagattttgaattatgaatcagGTTGGGTGGATATATGGCTCTGTTACAGAGGATATATTAACAGGATTCAAGATGCAATGCCATGGTTGGCGATCAGTGTACTGCATACCCAAGAGGCCGG
||| | || | | | | |||| | || | || || | ||| || || ||| | | |||| || || | | | | | ||||||| ||||| ||||| ||||| || |||||||| | || || ||||||||||| ||||||||||||||||| ||||||||||| |||||||| || |
gtaactttggcccatcatgtctttgtttttccttctcccatgtagtttccagatcaggctcttcaaactgtgtttgtgcccttgaaataaattgaaaaactgcaacctagcatccaagaatacttttagctaactcgatgaaaatatctagGTTGGTTGGATTTATGGATCTGTCACTGAGGATATCCTCACGGGCTTCAAGATGCACTGCCATGGTTGGCGATCTGTGTACTGCATGCCCAAGAGACCAG
upper sequence: Vv18s0072g00370.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA10G36790.1 (Glycine max), 3'ss of exon 12
gtaagaagcatctgtctaaaatttaaaagcttctagcttttccagtcccttccaaacaaggtgtaaactttttttcatctgtatctaaattccagattttgaattatgaatcagGTTGGGTGGATATATGGCTCTGTTACAGAGGATATATTAACAGGATTCAAGATGCAATGCCATGGTTGGCGATCAGTGTACTGCATACCCAAGAGGCCGG
|| || ||| | | ||| || |||| ||| || | | || ||| ||| | | ||||| |||||||||| || || ||||||||| ||||||||||| ||||||||||| |||||||||||||| ||||||||||| || |||||||||||||| ||||||||||| || || ||||| |
gtgtgacatatcccttggctactta-----tttaagctgg---agtttattatatttata-tgcaaatgtttgtataactgta-ctaaattccaatttcc---tt-----tcagGTTGGATGGATATATGGTTCTGTTACAGAAGATATATTAACAGGTTTCAAGATGCACTGTCATGGTTGGCGATCCGTGTACTGCATGCCTAAAAGGCCTG
upper sequence: Vv18s0072g00370.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA16G28080.1 (Glycine max), 3'ss of exon 11
gtaagaagcatctgtctaaaatttaaaagcttctagcttttccagtcccttccaaacaaggtgtaaactttttttcatctgtatctaaattccagattttgaattatgaatcagGTTGGGTGGATATATGGCTCTGTTACAGAGGATATATTAACAGGATTCAAGATGCAATGCCATGGTTGGCGATCAGTGTACTGCATACCCAAGAGGCCGG
| ||| |||| ||| || || | | || || | | |||| || | | | | | || | |||||||||||||||||||||||| |||||||| ||||| |||||||| ||||||||||| || ||||||||| |||| ||||||||||| || || ||||| |
---------------------------gtatgctatttttttcaga---tttaaagccttg---aagctctggtctgcatgtacttagacctctgctac--atttgtctttcagGTTGGGTGGATATATGGCTCAGTTACAGAAGATATTTTAACAGGTTTCAAGATGCATTGTCATGGTTGGAGATCTGTGTACTGCATGCCAAAAAGGCCTG
upper sequence: Vv18s0072g00370.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA02G08920.1 (Glycine max), 3'ss of exon 12
gtaagaagcatctgtctaaaatttaaaagcttctagcttttccagtcccttccaaacaaggtgtaaactttttttcatctgtatctaaattccagattttgaattatgaatcagGTTGGGTGGATATATGGCTCTGTTACAGAGGATATATTAACAGGATTCAAGATGCAATGCCATGGTTGGCGATCAGTGTACTGCATACCCAAGAGGCCGG
||| | || ||| | | ||||||| ||| |||| || || | || | | ||||| || | | | | | || | |||||||||||||||||||||||| ||||| || ||||| |||||||| ||||||||||| || ||||||||| |||| || |||||||| || || ||||| |
gtatgc--tatttgtttcatatttaaagccttgaagctctttca---------------------agctctggtcttcctgtacttagacctctgctac--atttgtctttcagGTTGGGTGGATATATGGCTCAGTTACCGAAGATATTTTAACAGGTTTCAAGATGCATTGTCATGGTTGGAGATCTGTATACTGCATGCCAAAAAGGCCTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggtgtaaactttttttcatctgtatctaaattccagattttgaattatgaatcagGTTGGGTGGATATATGGCTCTGTTACAGAGGATATATTAACAGGATTCAAGATGCAATGCCATGGTTGGCGATCAGTGTACTGCATACCCAAGAGGCCGG
atctaaa putative branch site (score: 3)
attttgaattatgaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagaagcatctgtctaaaatttaaaagcttctagcttttccagtcccttccaaacaaggtgtaaactttttttcatctgtatctaaattccagattttgaattatgaatcagGTTGGGTGGATATATGGCTCTGTTACAGAGGATATATTAACAGGATTCAAGATGCAATGCCATGGTTGGCGATCAGTGTACTGCATACCCAAGAGGCCGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG