Sequence
atgc intronic sequence ATGC exonic sequence...atacaacttctggactcgtttaagtatttgtcctgctgcttaggtaattaaaatgattgcttctacttgttatgtttcttaattcttggcaaaattacagGCAAAGAGTTTGACACATATGCAAAAGTTGTTGTGAATGCTGCTGGGCCATTTTGTGACTCTGTCAGGAAAATGGCTGACAAAGAATCACAGCCAATGAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0019g04730.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G446108_T03 (Zea mays), 3'ss of exon 2
atacaacttctggactcgtttaagtatttgtcctgctgcttaggtaattaaaatgattgcttctact-tgttatgtttcttaattcttggcaaaatt--acagGCAAAGAGTTTGACACATATGCAAAAGTTGTTGTGAATGCTGCTGGGCCATTTTGTGACTCTGTCAGGAAAATGGCTGACAAAGAATCACAGCCAATGAT
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-tgcaaatgtatcagtttttttcatgatgggaaacccgaata--tcattaccataagcaacaaaactacagcaaatatccttatgcttgcaaatgtgtgtcagGTAAGGAGTTTGAAACCTTCGCAAAGGTGGTTGTTAATGCAGCAGGACCATTCTGTGACTCTGTGAGGAAGATGGCTGACAGTACCGTAGCACCTATGAT
upper sequence: Vv13s0019g04730.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA10G35170.1 (Glycine max), 3'ss of exon 2
------atacaacttctggactcgtttaagtatttgtcctgctgcttaggtaattaaaatgattgcttctacttgttatgtttcttaattcttggcaaaattacagGCAAAGAGTTTGACACATATGCAAAAGTTGTTGTGAATGCTGCTGGGCCATTTTGTGACTCTGTCAGGAAAATGGCTGACAAAGAATCACAGCCAATGAT
|| | | || | |||||| | | |||| || ||| | ||| | | | ||| ||| || | || | | |||||||||||||||| |||||||||||||| |||||||||| | ||||||||||||||||||| | ||||||||||| ||||| | ||||| ||||||
gagcatatcttaatctgtgagt--tttaagaaccaaaattaaatattagttatttatagc--ttgatagt--taattacctttatttgctatttttcatgctgcagGCAAAGAGTTTGATACATATGCAAAAGTAATTGTGAATGCGGGTGGGCCATTTTGTGACTCTATAAGGAAAATGGCCAACAAAAATGCACAGGAAATGAT
upper sequence: Vv13s0019g04730.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA20G32390.1 (Glycine max), 3'ss of exon 2
atacaacttctggactcgtttaagtatttgtcctgctgcttaggtaattaaaatg-attgctt--ctacttgttatgtttcttaattcttggcaaaattacagGCAAAGAGTTTGACACATATGCAAAAGTTGTTGTGAATGCTGCTGGGCCATTTTGTGACTCTGTCAGGAAAATGGCTGACAAAGAATCACAGCCAATGAT
| || ||| | || ||| || | | ||| || | || ||||||| | || ||| || || || | | |||||||||||||||| ||||||||||| || |||||||||| | ||||||||||||||||||| | ||||||||||| ||||| | ||||| ||||||
-gagtacatcttaatctgt--gagttttaggaatcaaaattaaatattggttatttattgcttgatagttaactacctttatttgttattttacatgctgcagGCAAAGAGTTTGATACATATGCAAAGGTAATTGTGAATGCGGGTGGGCCATTTTGTGACTCTATAAGGAAAATGGCCAACAAAAATGCACAGGAAATGAT
upper sequence: Vv13s0019g04730.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA02G28000.1 (Glycine max), 3'ss of exon 2
-atacaacttctggactcgtttaagtatttgtcctgctgcttaggtaattaaaatgattgcttctacttgttatgtttcttaattcttggcaaaattacagGCAAAGAGTTTGACACATATGCAAAAGTTGTTGTGAATGCTGCTGGGCCATTTTGTGACTCTGTCAGGAAAATGGCTGACAAAGAATCACAGCCAATGAT
| | | | || | | || | | ||| | || || || | | ||| | | || ||| || | || |||| ||||||||||| || ||||||||||| |||||||||| ||||||||||||||||| || || || ||||||||||||||| ||| |||||
tctccctccatgtgcatcaaatgcatcttaagcttaaaaattattttcttttaacagtt-caatagttcactatatctattcattattttgcatgttgcagGAAAAGAGTTTGATACGTATGCAAAAGTAATTGTGAATGCGGCTGGGCCATTTTGTGATTCAGTAAGAAAAATGGCTGACAAAAGTGCACGAGACATGAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aattaaaatgattgcttctacttgttatgtttcttaattcttggcaaaattacagGCAAAGAGTTTGACACATATGCAAAAGTTGTTGTGAATGCTGCTGGGCCATTTTGTGACTCTGTCAGGAAAATGGCTGACAAAGAATCACAGCCAATGAT
tcttaat putative branch site (score: 3)
ttatgtttcttaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atacaacttctggactcgtttaagtatttgtcctgctgcttaggtaattaaaatgattgcttctacttgttatgtttcttaattcttggcaaaattacagGCAAAGAGTTTGACACATATGCAAAAGTTGTTGTGAATGCTGCTGGGCCATTTTGTGACTCTGTCAGGAAAATGGCTGACAAAGAATCACAGCCAATGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- -caacttc
- - - - - - - - - - - - - - - -cctgctg
- - - - - - - - - - - - - - - - - - - - - - -aattaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttcttgg