Sequence
atgc intronic sequence ATGC exonic sequencegtaaaatagtgttttgtatatgtgattattgattattccacattcataaaaaattgtggctcactaagtcatttgtgcagACTGCCAAGGAGTATTCTGAACAGTTGGGTGTTGAGGCATGTATAAAACTGTTTGAGCAGTTCAAGTCTTATGAAGGATTATACTTTTTCTTGGGGTCAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: LOC_Os12g01390.1 (Oryza sativa), 3'ss of exon 19
--------gtaaaatagtgttttgtatatgtgattattgattattccacattcata--aaaaattgtggctcactaagtcatttgtgcagACTGCCAAGGAGTATTCTGAACAGTTGGGTGTTGAGGCATGTATAAAACTGTTTGAGCAGTTCAAGTCTTATGAAGGATTATACTTTTTCTTGGGGTCAT
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gtatttttgctacgtttagtttgaccttcccttttttgtcacttctcacattggttctgattattatcgaaacatgtgtcatatctgcagGCTGCCAAAGAATACTCTGAGCAGCTAGGGGTTGATGCTTGCATAAAACTGTTTGAGCAATTCAAATCTTACGAGGGCCTTTACTTTTTCTTGGGAGCTT
upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: LOC_Os11g01380.1 (Oryza sativa), 3'ss of exon 19
------gtaaaatagtgttttgtatatgtgattattgattattccacattcataaaaa--attgtggctcactaagtcatttgtgcagACTGCCAAGGAGTATTCTGAACAGTTGGGTGTTGAGGCATGTATAAAACTGTTTGAGCAGTTCAAGTCTTATGAAGGATTATACTTTTTCTTGGGGTCAT
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gtatttgctacatttagtttaaccttcccttttttgtcacttctcacattggttctgattattatcgaaacatgtgtcatatctgcagGCTGCCAAAGAATACTCTGAGCAGCTAGGGGTTGATGCTTGCATAAAACTGTTTGAGCAATTCAAATCTTACGAGGGCCTTTACTTTTTCTTGGGAGCTT
upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: GLYMA14G37510.1 (Glycine max), 3'ss of exon 17
---------------------------------gtaaaatagtgttttgtatatgtg---attattgattattccacattcataaaaaattgtggctcactaagtcatt-tgtgcagACTGCCAAGGAGTATTCTGAACAGTTGGGTGTTGAGGCATGTATAAAACTGTTTGAGCAGTTCAAGTCTTATGAAGGATTATACTTTTTCTTGGGGTCAT
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gtactgtattagggcttggtagtcggtataatgtttccatgatatttttaacaattatctttttttggtttttttataatttcaataaaa-gaatcttactagtacatgatttgcagACTGCTAAGGAATATTGTGAACAGCTGGGTGTTGATGCATGCATTAAACTCTTTGAGCAATTCAAGTCCTATGAAGGACTATACTTTTTCTTGGGTGCAT
upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: GLYMA11G06720.1 (Glycine max), 3'ss of exon 19
----------------------gtaaaatagt-gttttgtatatgtgattattgattattccaca-ttcataaaaaattgtggctcactaagtcatt-tgtgcagACTGCCAAGGAGTATTCTGAACAGTTGGGTGTTGAGGCATGTATAAAACTGTTTGAGCAGTTCAAGTCTTATGAAGGATTATACTTTTTCTTGGGGTCAT
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gtactgtttctggataattttgccataagagtcatgttctattt-tattttttga--attccgcaattcatctataagaaaatcttactagtacatggtttgcagACTGCTAAGGAATATTCTGAGCAGTTGGGTGTTGATGCATGCATTAAACTCTTTGAGCAATTCAAATCCTATGAAGGACTATACTTTTTCTTGGGTGCAT
upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: GLYMA01G38580.1 (Glycine max), 3'ss of exon 19
-----------gtaaaatagtgttttg---tatatgtgattattgatt------attccaca-ttcataaaaaattgtggctcactaagtcatt-tgtgcagACTGCCAAGGAGTATTCTGAACAGTTGGGTGTTGAGGCATGTATAAAACTGTTTGAGCAGTTCAAGTCTTATGAAGGATTATACTTTTTCTTGGGGTCAT
||| ||| || | | |||| | || ||| |||||||| ||||| | || | || |||| ||| | | |||||||| ||||| |||||||| |||||||||||||| ||||| || ||||| ||||| || ||||| || |||||||||||||||||||||||||| |||
gtactgtttctgtataatgttgccataagattcatgttctattttattttttgaattccacaattcatctataagagaatcttactagtacatgatttacagACTGCTAAGGAATATTCTGAGCAGTTGGGTGTTGATGCATGCATTAAACTCTTTGAACAATTCAAATCCTATGAAGGATTATACTTTTTCTTGGGTGCAT
upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: GLYMA02G39360.1 (Glycine max), 3'ss of exon 19
---------------------------------gtaaaatagtgttttgta----tatgtgattattgattattccaca-ttcataaaaaattgtggctcactaagtcatt-tgtgcagACTGCCAAGGAGTATTCTGAACAGTTGGGTGTTGAGGCATGTATAAAACTGTTTGAGCAGTTCAAGTCTTATGAAGGATTATACTTTTTCTTGGGGTCAT
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gtactgtattagggcttggtagtcggtataatgtttccatgatattttttacaattatatttttttgggtttttttataatttctataaaagaat--cttactagtacattatttgcagACTGCCAAGGAATATTGTGAACAGCTCGGTGTAGATGCATGCATTAAACTCTTTGAGCAATTCAAGTCCTATGAAGGACTATACTTTTTCTTGGGTGCAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttattgattattccacattcataaaaaattgtggctcactaagtcatttgtgcagACTGCCAAGGAGTATTCTGAACAGTTGGGTGTTGAGGCATGTATAAAACTGTTTGAGCAGTTCAAGTCTTATGAAGGATTATACTTTTTCTTGGGGTCAT
ggctcac putative branch site (score: 3)
acattcataaaaaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaaatagtgttttgtatatgtgattattgattattccacattcataaaaaattgtggctcactaagtcatttgtgcagACTGCCAAGGAGTATTCTGAACAGTTGGGTGTTGAGGCATGTATAAAACTGTTTGAGCAGTTCAAGTCTTATGAAGGATTATACTTTTTCTTGGGGTCAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG