Sequence
atgc intronic sequence ATGC exonic sequencegtgagataaacattcactctactaatttacttttcttattccattttggagtcttataattgtctgttaatttttgttgcagGTTGGTGGTGGTATGGGAAGAACACATAGATTGGAGACCACTTTCCCACGTCTGTCAGAGTCATTGGGATTTGTACGAAAAGAAGATATACTGTATGCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g02330.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA11G09890.1 (Glycine max), 3'ss of exon 2
------gtgagataaacattcactctactaatttacttttcttattccattttgg--agtcttataattg---tctgttaatttttgttgcagGTTGGTGGTGGTATGGGAAGAACACATAGATTGGAGACCACTTTCCCACGTCTGTCAGAGTCATTGGGATTTGTACGAAAAGAAGATATACTGTATGCAG
| ||| | | | | | | |||| || ||| ||| | | || ||| || || ||||| | ||||||||||||||||| ||||||||||| ||||| ||||| |||||||| || || || |||| || | || | |||| ||| || ||||| |||||||||
gtaagaataggatggatgtagataacagttgagtgattttttttttctttttctaccatttttctaactgggaccttctaattactcttgcagGTTGGTGGTGGAATGGGAAGAACTCATAGGTTGGAAACCACTTTTCCTCGCTTGGCAGAACCAATAGGTTACGTACCAAAGGAGGATATTTTGTATGCAG
upper sequence: Vv06s0004g02330.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA12G02200.1 (Glycine max), 3'ss of exon 2
-----------gtgag-ataaacattcactctact-aatttacttttcttattccattttggagtcttataattgtctgttaatttttgttgcagGTTGGTGGTGGTATGGGAAGAACACATAGATTGGAGACCACTTTCCCACGTCTGTCAGAGTCATTGGGATTTGTACGAAAAGAAGATATACTGTATGCAG
|| | || | | | | | |||||| |||| || | ||||| | ||| | || ||||| || ||||||||||||||||| ||||||||||| ||||| || || |||||||| || || || | || |||| || | ||||| ||| || ||||| |||||||||
gtaagaataagatgggtgtagataacagtttgagtgaatttattttttttctaccattgt----tctaactgggaccttctaattattcttgcagGTTGGTGGTGGAATGGGAAGAACTCATAGGTTAGAAACCACTTTTCCTCGCTTGGCCGAACCATTAGGTTATGTACCAAAGGAGGATATTTTGTATGCAG
upper sequence: Vv06s0004g02330.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT5G04590.1 (Arabidopsis thaliana), 3'ss of exon 2
-----------------------------------------------------gtgagataaacattcactctactaatttacttttcttattccattttggagtctta---taattgtc-tgttaatttttgttgcagGTTGGTGGTGGTATGGGAAGAACACATAGATTGGAGACCACTTTCCCACGTCTGTCAGAGTCATTGGGATTTGTACGAAAAGAAGATATACTGTATGCAG
| | | ||| | | | ||||| | ||| || ||| |||| | | | | | | ||| |||||||||| ||||||||||||||||| ||| ||||| | ||||| | || ||| |||| || | || | ||| | ||| |||||||| ||||||| |
gtaagttgacactcatttagcctaatgtgctattatatatatttagtgtcaggcttgtttgcccgccttttctttcagtattctttttctggatactttcttggttttaaactaatgatgataatgactcatcttgtagGTTGGTGGGGGTATGGGAAGAACACACAGAATGGAGTCTACTTTTGCCCGCCTGGCAGAACCAATAGGTTATGTTCCAAAGGAAGATATTTTGTATGCTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tacttttcttattccattttggagtcttataattgtctgttaatttttgttgcagGTTGGTGGTGGTATGGGAAGAACACATAGATTGGAGACCACTTTCCCACGTCTGTCAGAGTCATTGGGATTTGTACGAAAAGAAGATATACTGTATGCAG
tgttaat putative branch site (score: 3)
tttttgtt CT-rich tract
ttataattgtctgtta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagataaacattcactctactaatttacttttcttattccattttggagtcttataattgtctgttaatttttgttgcagGTTGGTGGTGGTATGGGAAGAACACATAGATTGGAGACCACTTTCCCACGTCTGTCAGAGTCATTGGGATTTGTACGAAAAGAAGATATACTGTATGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG