Sequence
atgc intronic sequence ATGC exonic sequence...ttcttccctctttctgtttctatttgagaaattacagatgggctagctaaccctatcacctctttgctgctctaaactcaatgtatcctgtggcatacagGTTTTAAATATGCTTTGCTGTTGGGTGGAAGATCCAAACTCAGAGGCTTTCAAGTTACATCTTCCTAGAATTTTTGATTTCCTGTGGCTTGCTGAAGATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0065g00640.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G341010_T01 (Zea mays), 3'ss of exon 7
ttcttccctctttctgtttctatttgagaaattacagatgggctagctaaccctatcacctctttgc------tgctctaaactcaatgtatcctgtggcatacagGTTTTAAATATGCTTTGCTGTTGGGTGGAAGATCCAAACTCAGAGGCTTTCAAGTTACATCTTCCTAGAATTTTTGATTTCCTGTGGCTTGCTGAAGATG
| | | || | | | || | || ||| ||||| | || || | ||||| || | | || | | | |||||| || ||||||||| |||||| | ||||| |||||||||||||| |||||| | ||| ||||| |||||| ||||| ||||||||||||||||||
-----aagtgtgtgccttagtgactagattagtataatattcttaactattcctataagcttgttccacaaattgctcccaaat-atcaaataatattatacacagGTATTGAATATGCTTGCTTGTTGGATTGAAGACCCAAACTCAGAGGCATTCAAGCTCCATGTTCCTCGAATTTATGATTATTTGTGGCTTGCTGAAGATG
upper sequence: Vv11s0065g00640.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G065494_T01 (Zea mays), 3'ss of exon 7
ttcttccctctttctgtttctat-ttgagaaa---ttacagatgggctagctaaccctatcacctctttgctgctctaaactcaatgtatcctgtggcatacagGTTTTAAATATGCTTTGCTGTTGGGTGGAAGATCCAAACTCAGAGGCTTTCAAGTTACATCTTCCTAGAATTTTTGATTTCCTGTGGCTTGCTGAAGATG
| | || || | ||| ||| |||| ||| | || | | | | | || ||| | || | | | | | ||||||| |||||||||||| || ||| | |||||||||||||||||||| ||||| | || | || || | | ||| | | ||||||||||||||||||
--atgttcagttattgctcatatgttgcgaaacttttatatatagatttcttgattatttcttaatattgttcaactga--ttgccgcaagaaattctgtacagGTATTAAATATGCTTGCTTGCTGGATTGAAGATCCAAACTCAGAGGCCTTCAAACTCCACATCCCACGAGTCTATGACTACTTGTGGCTTGCTGAAGATG
upper sequence: Vv11s0065g00640.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA01G00430.2 (Glycine max), 3'ss of exon 8
ttcttccctctttctgtttctatttgagaaattacagatgggctagctaaccctatcacctctttgctgctctaaactcaatgtatcctgtggcatacagGTTTTAAATATGCTTTGCTGTTGGGTGGAAGATCCAAACTCAGAGGCTTTCAAGTTACATCTTCCTAGAATTTTTGATTTCCTGTGGCTTGCTGAAGATG
| || || | | || | || |||| || | | || || || | | | | | | | || | || ||||| ||||||||||||||||||||||||||||||||||| || ||||| |||||||| |||||||| || |||| ||||| || ||| |||| |||||||
gcttcccttccatgttccccttatagattaattccacctaaaccagtaaatgcttaggaatactgattacctagttatgattctaatggttattattcagGTGTTAAATATGCTTTGCTGTTGGGTGGAAGATCCAAATTCTGAGGCCTTCAAGTTGCATCTTCCCAGGATTTATGATTATCTATGGATTGCAGAAGATG
upper sequence: Vv11s0065g00640.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT2G07050.1 (Arabidopsis thaliana), 3'ss of exon 7
--------------------------------------------------------------------------------ttcttccctctttctgtttctatttgagaaattacagatgggctagctaaccctatcacctctttgctgctctaaactcaatgtatcctgtggcat-acagGTTTTAAATATGCTTTGCTGTTGGGTGGAAGATCCAAACTCAGAGGCTTTCAAGTTACATCTTCCTAGAATTTTTGATTTCCTGTGGCTTGCTGAAGATG
| | | |||| ||||| || || | | ||| | || | || || ||| | ||| | ||||| | | |||| ||||||||||||||||||||||| ||||| ||||||||||||||||||||||| || || || ||||| ||| || || ||| | ||||||||||
gtatgcaaacttccactacagcctctgtaccattgtcttaacgattgttattattctctttcgcaagttcagtatgaggatatgttcgactttgtgttttctttctgtttatgattcctctactattttttttgccagccaatcctcttctttaatcatc-tgtgttctgtgctgttatagGTATTAAATATGCTTTGCTGTTGGGTAGAAGACCCAAACTCAGAGGCTTTCAAGTTGCACCTACCAAGAATCCATGACTTTCTCTGGTTAGCTGAAGATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gctaaccctatcacctctttgctgctctaaactcaatgtatcctgtggcatacagGTTTTAAATATGCTTTGCTGTTGGGTGGAAGATCCAAACTCAGAGGCTTTCAAGTTACATCTTCCTAGAATTTTTGATTTCCTGTGGCTTGCTGAAGATG
aatgtat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttcttccctctttctgtttctatttgagaaattacagatgggctagctaaccctatcacctctttgctgctctaaactcaatgtatcctgtggcatacagGTTTTAAATATGCTTTGCTGTTGGGTGGAAGATCCAAACTCAGAGGCTTTCAAGTTACATCTTCCTAGAATTTTTGATTTCCTGTGGCTTGCTGAAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - -ccctctt
- - - - - - -ctgtttc
- - - - - - - - - - - - - agaaatt
- - - - - - - - - - - - - - - - - - - -gggctag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gctgctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaactca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtatcc