Sequence
atgc intronic sequence ATGC exonic sequencegtatactctttttgttgtggtcaaattcctgacttgtgctttccagactcaggttcctaatgtagagttgtatgtgctgcagCTCACTTTTCGTCATATGTTGCCAAATTTCAATGAGTGCTGGTGGGATAGCATTGTCCTAGACATATTGATATGCAATTGGTTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G095757_T02 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os01g02890.1 (Oryza sativa), 3'ss of exon 7
gtatactctt--tttgttgtggtcaa---attcctgacttgtgctttccagactcaggttcctaatgtagagttgtatgtgctgcagCTCACTTTTCGTCATATGTTGCCAAATTTCAATGAGTGCTGGTGGGATAGCATTGTCCTAGACATATTGATATGCAATTGGTTTG
|||| | || | | | |||| ||| || ||| || ||| | || ||||| | ||| | |||| ||||||||||| ||||| |||||| ||||||| || |||||||| |||||||||||||| || ||||||||||| || |||||||||||||
gtatgcatttaatcttacacgatcaatttatttttggcttctgtcttctgaatctagattccttacatagtttcacatgtcctgcagCTCACCTTTCGCCATATGCTGCCAAACTTTAATGAGTGTTGGTGGGATAGCATCGTACTAGACATATTAATCTGCAATTGGTTTG
upper sequence: GRMZM2G095757_T02 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA20G25830.2 (Glycine max), 3'ss of exon 10
------------------------------------------------------gtatactctttttgttgtggtcaaattcctgact-tgtgctttccagactcaggttcctaatgtagagt-tgtat-gtg--ctgcagCTCACTTTTCGTCATATGTTGCCAAATTTCAATGAGTGCTGGTGGGATAGCATTGTCCTAGACATATTGATATGCAATTGGTTTG
| || | | | | | || || | | | | || || | || | ||| | || || ||| ||||||||||| |||||||||||||||||||||||||||||||| || ||| | || ||||| ||||| |||||||||||||
gtaagcccttatctgattaatacactccgattttttcacataggtgtggttatgggttagtgcatccataaagcttgtttttcttttgatatatctatatcgtttgaattgcttacataacatctgtgttgtaatcttcagTATACTTTTCGTCACATGTTGCCAAATTTCAATGAGTGCTGGTGGGACAGTATTATTCTTGACATTTTGATCTGCAATTGGTTTG
upper sequence: GRMZM2G095757_T02 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA10G41430.1 (Glycine max), 3'ss of exon 8
------------------------------------------------------gtatactctttttgttgtggtcaaattcctgacttgtgctttccagac---tcaggttcctaatgtagagttgtatgtg-----ctgcagCTCACTTTTCGTCATATGTTGCCAAATTTCAATGAGTGCTGGTGGGATAGCATTGTCCTAGACATATTGATATGCAATTGGTTTG
| || | | || | | | || || ||| | || | | | || || | || || | ||| || ||| |||||||||||| ||||||||||||||||| |||||||||||||| || ||| | || ||||| ||||| |||||||||||||
gtaatccctgatctgattaatacactctgattttttcacataggtgtggttgtgggttagtgcatccgtaaagcttgattttttgttttgatatatctatatcttttgaattgcttacataccattctgtgttggcatcttcagTACACTTTTCGTCACATGTTGCCAAATTTCAACGAGTGCTGGTGGGACAGTATTATTCTTGACATCTTGATCTGCAATTGGTTTG
upper sequence: GRMZM2G095757_T02 (Zea mays), 3'ss of exon 7
lower sequence: AT1G15110.1 (Arabidopsis thaliana), 3'ss of exon 8
--------gtatactctttttgttgtggtcaaattcctgacttgtgctttccagac---tcaggttcctaatgt------agagttgtat----gtgctgcagCTCACTTTTCGTCATATGTTGCCAAATTTCAATGAGTGCTGGTGGGATAGCATTGTCCTAGACATATTGATATGCAATTGGTTTG
| | || |||| || | | | | | | ||| | | || | || | | ||| | |||| ||| || || ||| | |||||||| |||||||| ||||||||||| |||||||||||||| || ||||| || || || ||||||||||| |||||||
gttggtctttgtcttcgttttcttatattacaggttccaatttgatatatacaaaaatatcgcttcgcctgtgtcaccgaaaagttatatttatgttctccagGTTACTTTTCGGCATATGTTACCAAATTTCAACGAGTGCTGGTGGGACAGTATTGTTCTTGATATCTTGATATGCAACTGGTTTG
upper sequence: GRMZM2G095757_T02 (Zea mays), 3'ss of exon 7
lower sequence: Vv01s0011g04370.t01 (Vitis vinifera), 3'ss of exon 8
------------------------------------------------------------------gtatactctttttgttgtggtcaaattcctgacttgtgctttccagactcaggttcctaatgtagagttgtatgtgctg----cagCTCACTTTTCGTCATATGTTGCCAAATTTCAATGAGTGCTGGTGGGATAGCATTGTCCTAGACATATTGATATGCAATTGGTTTG
| || | |||| ||| || ||| | | | | | || | ||| || |||| ||| || ||||| ||||| || |||||||| ||||| ||||||||||| |||||||| || ||| |||| ||||| || | |||||||||||||
gtcagtttcttggtctgataatgttattttgtgttttgcctcttaggttgtcatggttaatctaccttgtatgtctaagaatgtgctcatgtttctgttctcaaactgactgtttgagttctataaagttaagttttatttgtcaatttcagCTTACTTTCCGCCATATGTTACCAAACTTCAATGAGTGTTGGTGGGACAGTATTATCCTCGACATTTTAGTCTGCAATTGGTTTG
upper sequence: GRMZM2G095757_T02 (Zea mays), 3'ss of exon 7
lower sequence: Vv17s0000g03010.t01 (Vitis vinifera), 3'ss of exon 7
--------------gtatactctttttgttgtggtcaaattcctgacttgtgctttccagactcaggttcctaatgtagagtt-gtatgtgc---tgcagCTCACTTTTCGTCATATGTTGCCAAATTTCAATGAGTGCTGGTGGGATAGCATTGTCCTAGACATATTGATATGCAATTGGTTTG
| | | || ||| | | ||| | | ||| | | || || |||| | || | | | ||||||||||||| || || ||||||||||| ||||||||||||||||||||||| ||||| | ||| | | |||||||||||||||
attttggaaggcaaatgggcagtacatgaggtgttgatccacctttatgcagtcttcgcatgttattttgctgctgtataattcattttcgtatttgcagCTCACTTTCCGCCACATGTTGCCAAACTTCAATGAGTGCTGGTGGGATAGTATTGTTTTGGACGTTCTAGTATGCAATTGGTTTG
upper sequence: GRMZM2G095757_T02 (Zea mays), 3'ss of exon 7
lower sequence: PP1S159_14V6.1 (Physcomitrella patens), 3'ss of exon 7
-----------------------------------------------------------gtatactctttttgttgtggtcaaattcctgacttgtgctt---tccagactcaggttcctaatgtagagttg--tatgtgc----------tgcagCTCACTTTTCGTCATATGTTGCCAAATTTCAATGAGTGCTGGTGGGATAGCATTGTCCTAGACATATTGATATGCAATTGGTTTG
|||| | | | || | | | ||| || | || | || | || || | || | | ||| ||||| | | || ||||||| | ||||||||||| || ||||||||||||||| ||||||||||| |||| || |||||||||||||
gtattgtttttgggtttctagtgctcatataataaagatagattcttatgcttatcactgtatgtttggtagctaagtgtaagaaggtaaatttgattttaatttgagggaaatattgcacatctataactgattttctgccctgtacatatgcagAGAAGTCTTATTCATATGCTCCCAAATTTCAACGAATGCTGGTGGGATAGCTTTGTCCTAGACGTATTAATTTGCAATTGGTTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cctgacttgtgctttccagactcaggttcctaatgtagagttgtatgtgctgcagCTCACTTTTCGTCATATGTTGCCAAATTTCAATGAGTGCTGGTGGGATAGCATTGTCCTAGACATATTGATATGCAATTGGTTTG
tcctaat putative branch site (score: 2)
taatgta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatactctttttgttgtggtcaaattcctgacttgtgctttccagactcaggttcctaatgtagagttgtatgtgctgcagCTCACTTTTCGTCATATGTTGCCAAATTTCAATGAGTGCTGGTGGGATAGCATTGTCCTAGACATATTGATATGCAATTGGTTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG