Sequence
atgc intronic sequence ATGC exonic sequence...catctgtgttggctgatagttatatctccctccctccctccctctgaaatatgtcttgaagacatggttttcaattgaacttcttgctttacctttgcagCAGCCTTTCTTTGCAAGGATGGTGAGAGTCAGTGTCTTGAATGATGCTCTAAAGAGCATGTATAATGCAGAGAAGCGGGGAAAGCGACAGGTTATGATCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0040g02460.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA15G10950.1 (Glycine max), 3'ss of exon 1
catctgtgttggctgatagttatatctccctccctccctccctctgaaatatgtcttgaagacatggttttcaattgaacttcttgctttacctttgcagCAGCCTTTCTTTGCAAGGATGGTGAGAGTCAGTGTCTTGAATGATGCTCTAAAGAGCATGTATAATGCAGAGAAGCGGGGAAAGCGACAGGTTATGATCA-------------
| || | || | | | || | | | || | || || | ||| | | | | | | | | | |||||||| || ||||| |||||||||||||| ||||||||||| ||||| ||||| ||||| ||||| ||||| ||||| |
-------ttcagccattgaaaatggaaaatattgtttgttgtt------tacatttgattggcacaatcttggtttatgtcagtgtggttaattcttctgaaatttgtgacagTGACAATGGTGAGGGTTAGTGTGTTGAATGATGCTCTTAAGAGCATGTACAATGCTGAGAAACGGGGGAAGCGCCAGGTCATGATTAGGCCATCCTCAAA
upper sequence: Vv08s0040g02460.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA11G00600.2 (Glycine max), 3'ss of exon 1
catctgtgttggctgatagttatatctccctccctccctccctctga--aatatgtcttgaagacatggttttcaattgaacttcttgctttacctttgcagCAGCCTTTCTTTGCAAGGATGGTGAGAGTCAGTGTCTTGAATGATGCTCTAAAGAGCATGTATAATGCAGAGAAGCGGGGAAAGCGACAGGTTATGATCA----------
| | ||| ||| |||| | | | | | | ||| | | || |||| | | ||| ||||| | || || | |||||||| || ||||| |||||||||||||| ||||||||||| || || |||||||| || ||||| ||||| ||||| |
----tattcctgctttatgttgtatcatggaaaatggttttaagtagccgctgaatgtggaaatcgttcgttataattcatatatgcatttt-tgtttgctgtagTTTT-------GACAATGGTGAGGGTTAGTGTGTTGAATGATGCTCTGAAGAGCATGTACAACGCCGAGAAGCGCGGGAAGCGCCAGGTCATGATTAGGCCATCCTC
upper sequence: Vv08s0040g02460.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA11G00590.2 (Glycine max), 3'ss of exon 1
catctgtgttggctgatagttatatctccctccctccctccctctgaaatatgtcttgaa-gacatggttttcaattgaacttcttgctttacctttgcagCAGCCTTTCTTTGCAAGGATGGTGAGAGTCAGTGTCTTGAATGATGCTCTAAAGAGCATGTATAATGCAGAGAAGCGGGGAAAGCGACAGGTTATGATCA----------
| | ||| ||| |||| | | || || |||| | | || | | | ||| | | | | ||| || | ||| | |||||||| || ||||| |||||||||||||| ||||||||||| || || |||||||| || ||||| ||||| ||||| |
----tattcctgctttatgttgtatcatggaaaatggtttt-----aagtagccactgaatgtggtaattgttcgctataattcata-tatgcatttttgtttgctgtagTTT-TGACAATGGTGAGGGTTAGTGTGTTGAATGATGCTCTGAAGAGCATGTACAACGCCGAGAAGCGCGGGAAGCGCCAGGTCATGATTAGGCCATCCTC
upper sequence: Vv08s0040g02460.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA01G45060.1 (Glycine max), 3'ss of exon 1
catctgtgttggctgatagttatatctccctccctccctccctctgaaatatgtcttgaagacatggttttcaattgaacttcttgctttacctttgca-gCAGCCTTTCT--------TTGCAAGGATGGTGAGAGTCAGTGTCTTGAATGATGCTCTAAAGAGCATGTATAATGCAGAGAAGCGGGGAAAGCGACAGGTTATGATCA----------
|||| ||| | | | |||| ||| || || | |||| || | | | | || | | | || || | ||| | |||||||| || ||||| |||||||||||||| ||||||||||| || || ||||| ||||| ||||| || || ||||| |
------------------tttat-tcttggttttgttttatcatggaaaattgttttaaatagccggttaatgtggaaattgttcgttataattatatatacaattttgtttactgtagTTGTGACAATGGTGAGGGTTAGTGTGTTGAATGATGCTCTGAAGAGCATGTACAACGCCGAGAAACGGGGGAAGCGCCAAGTCATGATTAGGCCGTCCTC
upper sequence: Vv08s0040g02460.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA17G02200.1 (Glycine max), 3'ss of exon 1
-------catctgtgttggct-gatagttatatctccctccctccctccctctgaaatatgtcttgaagacatggttttca-attgaacttcttgctttacctttgcagCAGCCTTTCTTT--GCAAGGATGGTGAGAGTCAGTGTCTTGAATGATGCTCTAAAGAGCATGTATAATGCAGAGAAGCGGGGAAAGCGACAGGTTATGATCA---------
| | | || || ||| | ||| | | || | | || || | | || | | | | | | | || ||| || || | || | || | | | |||||||| || ||||| |||| |||||||| ||||||||||| ||||| ||||| |||||||||| || || ||||| |
gtaagattaacattattctctcgatcctcataaattggttccattcggagtgtgtgatttagttcacttacgccgctataataataatctgattgattctaattgaaatttgcgtctcagTGAGTCACCATGGTGAGGGTTAGTGTGCTGAACGATGCTCTGAAGAGCATGTACAATGCTGAGAAAAGGGGAAAGCGCCAAGTCATGATTAGGCCATCCT
upper sequence: Vv08s0040g02460.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA07G38520.1 (Glycine max), 3'ss of exon 1
-------catctgtgttggctga-tagttatatctccctccctccctccctctgaaatatgtcttgaagacatggttttcaattgaacttcttgctttacctttgcagCAGCCTTTCTTT--GCAAGGATGGTGAGAGTCAGTGTCTTGAATGATGCTCTAAAGAGCATGTATAATGCAGAGAAGCGGGGAAAGCGACAGGTTATGATCA---------
| | | || || | | ||| | || | | || || || || | || | | || | ||| || || | || | || | | |||||||| || ||||| |||| |||||||| ||||||||||| ||||| ||||| |||||||||| || || |||||
gtaagattaacactattctctctctcttcataaagtggttccattcggattgtgtgatttggtttacgccgctataattataataaattgtttgattctaattgaaatttgcgtctcagCGAGTGACCATGGTGAGGGTTAGTGTGCTGAACGATGCTCTGAAGAGCATGTACAATGCTGAGAAAAGGGGAAAGCGCCAAGTCATGATTCGGCCATCCT
upper sequence: Vv08s0040g02460.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: PP1S41_94V6.1 (Physcomitrella patens), 3'ss of exon 1
catctgtgttggctgatagttatatctccctccctccctccctctgaaatatgtcttgaagacatggttttcaattgaacttcttgctttacctttgcagCAGCCTTTCTTTGCAAG--------GATGGTGAGAGTCAGTGTCTTGAATGATGCTCTAAAGAGCATGTATAATGCAGAGAAGCGGGGAAAGCGACAGGTTATGATCA--------
|| | ||| | | || | | |||| ||| || ||| | | | | | | | || | ||| | | |||| || | |||||||||| ||||||| ||||| ||||| | |||| ||||| |||||||||||||| |||||||| || || |||| |
------------tagaaatttacaattgagaaggtcagagagt---agctatggcttcaattcatattggcctgattcaaatgtggtattgctattgtcgt-gttcatcttaacagGTAGGGCACGATGGTGAGAATCAGTGTGTTGAACGATGCGTTGAAGAACATGTTCAATGCAGAGAAGCGTGGAAAGCGTCAAGTGTTGATTAGGCCTTCG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaaatatgtcttgaagacatggttttcaattgaacttcttgctttacctttgcagCAGCCTTTCTTTGCAAGGATGGTGAGAGTCAGTGTCTTGAATGATGCTCTAAAGAGCATGTATAATGCAGAGAAGCGGGGAAAGCGACAGGTTATGATCA
cttcttgctttacctt CT-rich tract
ttttcaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
catctgtgttggctgatagttatatctccctccctccctccctctgaaatatgtcttgaagacatggttttcaattgaacttcttgctttacctttgcagCAGCCTTTCTTTGCAAGGATGGTGAGAGTCAGTGTCTTGAATGATGCTCTAAAGAGCATGTATAATGCAGAGAAGCGGGGAAAGCGACAGGTTATGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - -gtgttgg
- - - - - - ctgatag
- - - - - - - - - - - - - -ccctccc
- - - - - - - - - - - - - - - - - - - - - - tgaaata
- - - - - - - - - - - - - - - - - - - - - - - - - -tgtcttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - catggtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aattgaa