Sequence
atgc intronic sequence ATGC exonic sequence...tgttttaaaaaatagaaaatagaaatgcatcaaaatggatactatcattttttccttgtccattccaccttgcttatggatatttcctttatggacatagAAGCGGACACTATGTATGGGAAGACCATCGCCCTCGATCAGGTGTATGGAAAGGGACAAGTGGTGGGGAGGTCATTTCTTTTAGTGGTTGTGATGATCAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0013g00210.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G155422_T01 (Zea mays), 3'ss of exon 2
tgttttaaaaaatagaaaatagaaatgcatcaaaatggatactatcattttttccttgtccattccaccttgcttatggatatttcctttatggacat---agAAGCGGACACTATGTATGGGAAGACCATCGCCCTCGATCAGGTGTATGGAAAGGGACAAGTGGTGGGGAGGTCATTTCTTTTAGTGGTTGTGATGATCAT
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--ttgtattaggtatggctcataatcatatacatctataagagattctagttatgatagacatctcttca-gctaaggccttttatctaaattgatattacagGAGTGGGCAATATGTATGGGAAGATCACCGACCACCATCTGGTGTCTGGAAAGGCACTAGTGGTGGGGAGGCTATTTCATTTAGTGGTTGTGATGATGAT
upper sequence: Vv16s0013g00210.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G035928_T01 (Zea mays), 3'ss of exon 2
tgttttaaaaaatagaaaatagaaatgcatcaaaatggatactatcattttttccttgtccattccaccttgcttatggatattt-cctttatggacat---agAAGCGGACACTATGTATGGGAAGACCATCGCCCTCGATCAGGTGTATGGAAAGGGACAAGTGGTGGGGAGGTCATTTCTTTTAGTGGTTGTGATGATCAT
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tatccttaggtatggctgataatcatatac----atctataagagattctagttatgatagacatctcttcagctaaggattcttatctatattgatattacagGAGTGGGCAATATGTATGGGAAGATCACCGACCGCGATCTGGTGTCTGGAAAGGCACTAGTGGTGGGGAAGCTATTTCCTTTAGTGGTTGTGATGATGAT
upper sequence: Vv16s0013g00210.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA08G45470.1 (Glycine max), 3'ss of exon 2
tgttttaaaaaatagaaaatagaaatgcatcaaaatggatactatcattttttccttgtccattccaccttgc---ttatggatatttcctttatg-----gacatagAAGCGGACACTATGTATGGGAAGACCATCGCCCTCGATCAGGTGTATGGAAAGGGACAAGTGGTGGGGAGGTCATTTCTTTTAGTGGTTGTGATGATCAT
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------tataaccagtctcttctaac-taactaactagtcattattgactct-cattataaaccctaacttaccttttattcacactttgtttatatctttgtaacagGAGTGGGCAATATGTATGGGAGGACCATCGCCCTAGATCCGGTGTATGGAAGGGATCTAGTGGTGGAGAAGTTATCTGCTTCAGTGGATGCGACGATCAT
upper sequence: Vv16s0013g00210.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA01G10880.1 (Glycine max), 3'ss of exon 2
tgttttaaaaaatagaa-aatagaaatgcatcaaaatggatactatcatt--ttttccttgtccattccaccttgc---ttatggatatttcctttatggacat-----agAAGCGGACACTATGTATGGGAAGACCATCGCCCTCGATCAGGTGTATGGAAAGGGACAAGTGGTGGGGAGGTCATTTCTTTTAGTGGTTGTGATGATCAT
||||| |||||| | | | ||| ||| | || || | | | | ||| | |||| | | || ||||| || || || || || ||||||||||| |||||||||||| |||| ||||||||||| || | |||||||| || | || | || ||||| || |||||||||
-----------atagactaatagactaactgacaggctgtccttattattgactctcattataaaccctaacttaccttttattcacactttgtttatatctatgtaacagGAGTGGGCAATATGTATGGGAGGACCATCGCCCTAGATCTGGTGTATGGAAGGGATCTAGTGGTGGAGACATTATCTGCTTCAGTGGATGCGATGATCAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cattttttccttgtccattccaccttgcttatggatatttcctttatggacatagAAGCGGACACTATGTATGGGAAGACCATCGCCCTCGATCAGGTGTATGGAAAGGGACAAGTGGTGGGGAGGTCATTTCTTTTAGTGGTTGTGATGATCAT
tttcctttat CT-rich tract
atattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgttttaaaaaatagaaaatagaaatgcatcaaaatggatactatcattttttccttgtccattccaccttgcttatggatatttcctttatggacatagAAGCGGACACTATGTATGGGAAGACCATCGCCCTCGATCAGGTGTATGGAAAGGGACAAGTGGTGGGGAGGTCATTTCTTTTAGTGGTTGTGATGATCAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - aaaaaat
- - - - - - -agaaaat
- - - - - - - - - - -gaaatgc
- - - - - - - - - - - - - - -tcaaaat