Sequence
atgc intronic sequence ATGC exonic sequencegtaaggagaaaaaaattcaaagttctgaaaaccttccattagcaagttctaccattatcacttcattcctttctaaattttcaaacactgaaccagGTTGGCTGGATATATGGCTCTGTGACAGAGGATATACTAACAGGGTTCAAGATGCACTGCCATGGATGGCGGTCTGTTTACTGCATACCCAAGCGGCCTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0031g02060.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GRMZM5G840940_T01 (Zea mays), 3'ss of exon 3
--------------------------------------------gtaaggagaaaaaaat-tcaaagttctgaaaaccttccattagcaagttctaccattatcacttcattcctttctaaattttca---aacac--tgaa-----ccagGTTGGCTGGATATATGGCTCTGTGACAGAGGATATACTAACAGGGTTCAAGATGCACTGCCATGGATGGCGGTCTGTTTACTGCATACCCAAGCGGCCTG
|| ||| | | | || | || | | || || | | | || | | | | ||| | ||| | |||| | ||||||| ||||| ||||| ||||| || |||||||| || || || |||||||||||||||||||| ||||| ||||| |||||||| |||||| | || |
gtaactttggcccatcatgtctttgtttttccttctcccatgtagtttccagatcaggctcttcaaactgtgtttgtgcccttgaaataaattgaaaaactgcaacctagcatccaagaatacttttagctaactcgatgaaaatatctagGTTGGTTGGATTTATGGATCTGTCACTGAGGATATCCTCACGGGCTTCAAGATGCACTGCCATGGTTGGCGATCTGTGTACTGCATGCCCAAGAGACCAG
upper sequence: Vv07s0031g02060.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA08G15380.1 (Glycine max), 3'ss of exon 12
----gtaaggagaaaaaaattcaaagttctgaaaaccttccattagcaagttctaccattatcac-ttcattcctt---tctaaattttcaaacactgaaccagGTTGGCTGGATATATGGCTCTGTGACAGAGGATATACTAACAGGGTTCAAGATGCACTGCCATGGATGGCGGTCTGTTTACTGCATACCCAAGCGGCCTG
||| |||||| | | | | || | | ||| | |||| | | || |||| | || || | | |||||||||| ||||||||||| ||||||||||||||||| | || || || || ||||| |||||||| ||||||||||| || ||||| || ||||||||||
gtaagtatcatagaaaaaaattgttttgttaattctttttgaaaaattagtcttctcattcttatatttattctcttgctcataaaccgttggcgttttaccagGTTGGGTGGATATATGGTTCTGTGACAGAGGATATCTTGACTGGATTTAAAATGCATTGCCATGGTTGGCGGTCTGTGTATTGCATTCCTAAGCGGCCTG
upper sequence: Vv07s0031g02060.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA05G32100.1 (Glycine max), 3'ss of exon 12
gtaaggagaaaaaaattcaaa--gttctgaaaaccttccattagcaagttctaccattatcacttcattcctttctaaattttcaaacactga------accagGTTGGCTGGATATATGGCTCTGTGACAGAGGATATACTAACAGGGTTCAAGATGCACTGCCATGGATGGCGGTCTGTTTACTGCATACCCAAGCGGCCTG
||||| | | | || || ||| || ||| | | | || | | | || | ||| ||| | || | || |||||||||| ||||||||||| ||||||||||||||||| | || || || || ||||| |||||||| ||||||||||| || ||||| || ||||||||||
gtaagtatcatagaaagaaatttgttttgtaaattctttttgaaaaattagtcttctcattcttatatttcttctcttgctcataatcgttggcttgctaccagGTTGGGTGGATATATGGTTCTGTGACAGAGGATATCTTGACTGGATTTAAAATGCATTGCCATGGTTGGCGGTCTGTGTATTGCATTCCTAAGCGGCCTG
upper sequence: Vv07s0031g02060.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: AT2G21770.1 (Arabidopsis thaliana), 3'ss of exon 11
gtaaggagaaaaaaattcaaagttctgaaaacc-ttccattagcaagttctaccattatcacttcattcctttctaaattttcaaacactgaaccagGTTGGCTGGATATATGGCTCTGTGACAGAGGATATACTAACAGGGTTCAAGATGCACTGCCATGGATGGCGGTCTGTTTACTGCATACCCAAGCGGCCTG
| || || | | | | ||| || | || | | || | || | || | || ||| || || |||| ||||| |||||||| || || |||||||| |||| || ||||||||||| |||||||||||| | ||||| || || || || ||||| | |
------------gtaagcagagctatttactctgttctcttctctgtacttaatgtgaaagctgattatgcttttggatgatataatactacac-agATTGGGTGGATTTATGGCTCGGTCACTGAGGATATCTTAACGGGTTTCAAGATGCATTGCCATGGATGGAGATCTGTATATTGTATGCCAAAGCGAGCGG
upper sequence: Vv07s0031g02060.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: AT4G39350.1 (Arabidopsis thaliana), 3'ss of exon 11
gtaaggagaaaaaaattcaaagttctgaaaaccttccattagcaagttctaccattatcacttcattcctttctaaattttcaaacactgaaccagGTTGGCTGGATATATGGCTCTGTGACAGAGGATATACTAACAGGGTTCAAGATGCACTGCCATGGATGGCGGTCTGTTTACTGCATACCCAAGCGGCCTG
| |||||| | | ||||||| | || |||| | | || || | | |||||| | || ||| || | || | || ||||| ||||| || ||||| || ||||| || || || ||||||||||| |||||||||||| | ||||| ||||| || || ||||| | |
----gtagaaaacattacaaagtttttcaa--cttctgaaaactagaaaagttcttgtgatctcattcttgct--gataatcacacgc------agATCGGGTGGATTTATGGATCGGTGACTGAAGATATCCTGACGGGTTTCAAGATGCATTGCCATGGATGGAGATCTGTGTACTGTATGCCTAAGCGTGCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcaagttctaccattatcacttcattcctttctaaattttcaaacactgaaccagGTTGGCTGGATATATGGCTCTGTGACAGAGGATATACTAACAGGGTTCAAGATGCACTGCCATGGATGGCGGTCTGTTTACTGCATACCCAAGCGGCCTG
ttctaaa putative branch site (score: 2)
tttctaaattttcaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaggagaaaaaaattcaaagttctgaaaaccttccattagcaagttctaccattatcacttcattcctttctaaattttcaaacactgaaccagGTTGGCTGGATATATGGCTCTGTGACAGAGGATATACTAACAGGGTTCAAGATGCACTGCCATGGATGGCGGTCTGTTTACTGCATACCCAAGCGGCCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA