Sequence
atgc intronic sequence ATGC exonic sequencegtatggaattgaatatatagatctttgtctcttctctatttggctcacttacccaagatgctttgagcagGCATCATCAACATGGAAGATGGCAGGCAAGGATTGGAAGAGTTGCCGGAAACAAAGACCTCTATTTGGGAACTTTTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g01800.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA12G06010.1 (Glycine max), 3'ss of exon 7
------------------------------------gtatggaattgaatatatagatctttgtctcttctcta-tttggctcac-------ttacc--caagatgctttgagcagGCATCATCAACATGGAAGATGGCAGGCAAGGATTGGAAGAGTTGCCGGAAACAAAGACCTCTATTTGGGAACTTTTA
| | || || || | | | | |||| | ||| || | ||| | || |||||| |||||||| ||||| ||||||||||| ||||||||||| |||||||| ||||||||||| || || ||||||||||| |
gtatcaaatgggacaacaatgctttcttctttttctttctctcatcccatgcattgtcttcttttctttctacactttctcttagcaaaatattattattattattctttgattagGCATCACCAACACGGAAGATGGCAAGCAAGGATTGGCAGAGTTGCAGGAAACAAAGATCTTTACTTGGGAACTTTCA
upper sequence: Vv06s0004g01800.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA11G14040.2 (Glycine max), 3'ss of exon 8
----------------------------------gtatggaattgaatatatagatctttgtctcttctctatttggctcacttacccaagatg--------ctttgagcagGCATCATCAACATGGAAGATGGCAGGCAAGGATTGGAAGAGTTGCCGGAAACAAAGACCTCTATTTGGGAACTTTTA
| | | | | || || | | | |||| | | | | ||| || |||||| |||||||| ||||| ||||||||||| ||||| ||||| |||||||| ||||||||||| || || ||||||||||| |
gtctgaaaaatggcataacaatgctttcttctttttcttcctctcatcacatgcattctgtttttttctttctacactttttcttagcaaaatattattattctttgattagGCATCACCAACACGGAAGATGGCAAGCAAGAATTGGCAGAGTTGCAGGAAACAAAGATCTTTACTTGGGAACTTTCA
upper sequence: Vv06s0004g01800.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT3G20840.1 (Arabidopsis thaliana), 3'ss of exon 7
-----------------------------gtatggaattgaatatatagatct-ttgtctcttctctatttggctcacttacccaagatgctttgagcagGCATCATCAACATGGAAGATGGCAGGCAAGGATTGGAAGAGTTGCCGGAAACAAAGACCTCTATTTGGGAACTTTTA
|| | | | || | | | | || | | | |||| | ||||| | || || |||||||| ||||||||||||||||| |||||||| || |||| |||||||||||||||||||| |||||||||||||
gtttgcatacgtagatattcccatgcttagtcttttaagaagcatctttacttgtcgttgaatttttttttgtttttcttacttattata---tgtatagGCATCACCAACATGGAAGATGGCAAGCAAGGATCGGCCGAGTCGCCGGAAACAAAGACCTCTACTTGGGAACTTTTA
upper sequence: Vv06s0004g01800.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT1G51190.1 (Arabidopsis thaliana), 3'ss of exon 7
----------------------------------------------------------------------------------------------------------gtatggaattgaatatatagatctttgtctcttctctatttggctcacttacccaagatgctttgagcagGCATCATCAACATGGAAGATGGCAGGCAAGGATTGGAAGAGTTGCCGGAAACAAAGACCTCTATTTGGGAACTTTTA
| || | | | | | | ||||| ||| || | | || | | |||||||||||||||||||||||||| |||||||| || ||||||| |||
gtgattttccttttaatcggaccttgaatgtaaaacttcaaatagaagctaagtaggaactttctaatcagataattctatgaaaaaactttctaattaaagaacctcgcgtaaacaattgcagGAAAAGTAGCGGATTCTC-GCGTGGTGCATCCATGTATCGTGGAGTAACAAGGCATCATCAACATGGAAGATGGCAAGCAAGGATCGGCCGAGTTGCTGGA---------------------------- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatagatctttgtctcttctctatttggctcacttacccaagatgctttgagcagGCATCATCAACATGGAAGATGGCAGGCAAGGATTGGAAGAGTTGCCGGAAACAAAGACCTCTATTTGGGAACTTTTA
cacttac putative branch site (score: 2)
tctattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatggaattgaatatatagatctttgtctcttctctatttggctcacttacccaagatgctttgagcagGCATCATCAACATGGAAGATGGCAGGCAAGGATTGGAAGAGTTGCCGGAAACAAAGACCTCTATTTGGGAACTTTTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA