Sequence
atgc intronic sequence ATGC exonic sequence...gcatatatatgtcactgtgccttcatttcctttcaaagtttattgccaagtttctgtactgtttcattgatagtgtgtcttccatctgctgcatgtttagGCAGTCCTGTTCTTGGTTACTTGGCTGCTGGTATCTTGATTGGGCCTTATGGTCTCTCTATTATTCGTCATGTACATGGGACCAAAGCGATTGCAGAATT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0046g03390.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G058948_T01 (Zea mays), 3'ss of exon 3
----gcatatatatgtcactgtgccttcat--ttcctttcaa-agtttattgccaagtttctgtactgtttcattgatagtgtgtcttccatctgctgcatgtttagGCAGTCCTGTTCTTGGTTACTTGGCTGCTGGTATCTTGATTGGGCCTTATGGTCTCTCTATTATTCGTCATGTACATGGGACCAAAGCGATTGCAGAATT
||||| | | || | | | || ||| ||||| |||||| ||| || ||| || | || || |||||||||||||||||||| || | ||||||||| || | ||||| || ||||| ||||| || || ||| |||| |||||||| || || ||||| |||||
atgtgcatacaaaagttgagaaacatctgtgattaagatcatcagttttcatggaagtttttgtgaccttctgcaaataaa-----ttttacct--tgatatcttagGCAGTCCTGTTCTTGGATATCTTGCTGCTGGTGTCCTCATTGGTCCATATGGGCTCTCCATCATCCGTAATGTGCATGGGACAAAGGCAATTGCGGAATT
upper sequence: Vv15s0046g03390.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA09G39770.1 (Glycine max), 3'ss of exon 7
gcatatatatgtcactgtgccttcatttcctttcaaagtttattgccaagtttctgtactgtttcattgatagtgtgtcttccatct-gctgca-tgtttagGCAGTCCTGTTCTTGGTTACTTGGCTGCTGGTATCTTGATTGGGCCTTATGGTCTCTCTATTATTCGTCATGTACATGGGACCAAAGCGATTGCAGAATT
|| | | | | | || | | ||| || | || | | | ||| || | | || | ||| || || ||||||||||||||||||||||| ||||||||||| |||||||||||||||||||||||||||||||| |||||||| || |||||||| ||||| | || |||||
-tatgttaaatttcttttaaaggtatactcgat-aaaattaactgtcttacattcacatatttttatgccaatgatatcccctgtcttgcaacaatgtttagGCAGTCCTGTTCTTGGCTACTTGGCTGCCGGTATCTTGATTGGGCCTTATGGTCTCTCTATCATTCGTCACGTTCATGGGACAAAAGCAGTAGCTGAATT
upper sequence: Vv15s0046g03390.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA07G08030.1 (Glycine max), 3'ss of exon 3
gcatatatatgtcactgtgccttcatttcctttcaaagtttattgccaagtttctgtactgtttcattgatagtgt-----gtcttccatctgctgca-tgtttagGCAGTCCTGTTCTTGGTTACTTGGCTGCTGGTATCTTGATTGGGCCTTATGGTCTCTCTATTATTCGTCATGTACATGGGACCAAAGCGATTGCAGAATT
|| || | | | | || || | || |||||| || | | |||||| || | ||| || | |||| || ||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||| || ||||||||||| ||||| || ||||| || || || ||
--atcatcatctgaat-tatgtt--ttgggatacaggatttatt-ttaaatcataacttgatcaaattgattgtctgacaagtcatctacctgcaacaatgtttagGCAGTCCTGTTCTTGGCTACTTGGCTGCTGGTATCTTGATTGGGCCTTATGGTCTCTCCATCATTCGTCATGTTCATGGAACAAAAGCAATAGCCGAGTT
upper sequence: Vv15s0046g03390.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA18G46420.1 (Glycine max), 3'ss of exon 11
gcatatatatgtcactgtgccttcatttcctttcaaagtttattgccaagtttctgtactgtttcattgatagtgtgtcttccatct-gctgca-tgtttagGCAGTCCTGTTCTTGGTTACTTGGCTGCTGGTATCTTGATTGGGCCTTATGGTCTCTCTATTATTCGTCATGTACATGGGACCAAAGCGATTGCAGAATT
| | | | | | || | | ||| || ||| | | | | ||| | ||| | | | || ||| || || |||||||| |||||||||||||| |||||||||||||||||||||||||||||||||||||||||||| |||||||| || |||||||| ||||| | || |||||
-tgtgttaaatttcttttaaaggtatactcaat-aaaattatttgtcttacattcacatttttttaccgatgttattccctctgtcttgcaacaatgtttagGAAGTCCTGTTCTTGGCTACTTGGCTGCTGGTATCTTGATTGGGCCTTATGGTCTCTCTATCATTCGTCACGTTCATGGGACAAAAGCAGTAGCTGAATT
upper sequence: Vv15s0046g03390.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT4G00630.2 (Arabidopsis thaliana), 3'ss of exon 3
---------------------------------------------------------------------gcatatatatgtcactgt-gccttcattt---cctttcaaagtttattgcca-agtttctgtact-----gtttcattgatagtgtgtc--ttccatctgctgca-tgtttagGCAGTCCTGTTCTTGGTTACTTGGCTGCTGGTATCTTGATTGGGCCTTATGGTCTCTCTATTATTCGTCATGTACATGGGACCAAAGCGATTGCAGAATT
| | || ||| ||| | ||| || || | | | ||||| | | | | ||| | || || ||| || | ||||||||| | | ||||||| ||||||||||| || ||||| || || ||||||||||| |||||||||||||| || |||||| |||| ||||| ||||| || |||||||||||
gtaacgtaatatattaattcactcattgtattttaaatccccatattttgtcctccttgtttcatttggacttgtactattcattgttatcatcagacaaaccatttcacttctgttgccgcaatcataatgcatagagatttaaatgctatcttgttggtttcttctgctgcaatctatagGCAGCCCTGTTCTTGGGTATTTGGCGGCGGGAATCTTGATTGGTCCTTATGGTCTCTCAATAATTCGTAATGTGCATGGAACCAAGGCCATTGCAGAATT
upper sequence: Vv15s0046g03390.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT1G01790.1 (Arabidopsis thaliana), 3'ss of exon 4
--------------------------------------------------------------------------------------gcatatatatgtcactgtgccttcatttcctttcaaagtttattgccaagtttctgtactgtttcat-tgatagtgtgtc--ttccatctgctgca-tgtttagGCAGTCCTGTTCTTGGTTACTTGGCTGCTGGTATCTTGATTGGGCCTTATGGTCTCTCTATTATTCGTCATGTACATGGGACCAAAGCGATTGCAGAATT
|| | ||| | |||| ||| | || ||| | || | || || || | || | ||||||||||| ||| ||||||| ||||||||||| || ||||| ||||| || ||||||| || |||||||| || || || ||| |||| || || |||| || || ||||||||
gtaagtagtatttttttttcttcttttgttaattctatccattgcattactatttgtttcccctttccctcaaactcctacaatttctatgttctcatcagtcaaaaacattttcagttctggtctcgcaatcatgttgc-atagagatttatgtgccatcttgatggcttcatctgctgcaatgtatagGCAGCCCTGTTCTTGGGTATTTGGCAGCTGGAATTCTGATTGGTCCGTATGGTCTTTCGATAATCCGTAATGTGCACGGAACCAGGGCCATCGCAGAATT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccaagtttctgtactgtttcattgatagtgtgtcttccatctgctgcatgtttagGCAGTCCTGTTCTTGGTTACTTGGCTGCTGGTATCTTGATTGGGCCTTATGGTCTCTCTATTATTCGTCATGTACATGGGACCAAAGCGATTGCAGAATT
cattgat putative branch site (score: 4)
tttcatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcatatatatgtcactgtgccttcatttcctttcaaagtttattgccaagtttctgtactgtttcattgatagtgtgtcttccatctgctgcatgtttagGCAGTCCTGTTCTTGGTTACTTGGCTGCTGGTATCTTGATTGGGCCTTATGGTCTCTCTATTATTCGTCATGTACATGGGACCAAAGCGATTGCAGAATT
- - - - - gtcactg
- - - - - - - - - gccttca
- - - - - - - - - - - - - - cctttca
- - - - - - - - - - - - - - - - - - - - - ttgccaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctgtttc