Sequence
atgc intronic sequence ATGC exonic sequence...ttggtatgcagtttctattcattgtatacaacataattcatgacaagttacaacagaatttgtctttcaaaaacctattctattcttgcatgttttgcagGAAAATGGATATCAATTGCTTTTCCTTAGTGCACGAGCAATTTCTCAGGCCTATCACACTAGGCAATTTTTATTCAATCTTAAGCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g10680.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os11g40080.1 (Oryza sativa), 3'ss of exon 4
---------------------------------------------------------------------------------ttggta-tgca-gtttctattcat-tgtatacaacataattcatg-acaagttacaacagaatttgtctttcaa---aaacctattctatt---cttgcatgttttgcagGAAAATGGATATCAATTGCTTTTCCTTAGTGCACGAGCAATTTCTCAGGCCTATCACACTAGGCAATTTTTATTCAATCTTAAGCAG
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gtatgcatgctactcatgcaccattttaagttccacttccttatgtagcacaaaccagtaggaattgactgattattgcgttttatactgtgtgtgtgtgtttgtctctatctatgtgaattcatgcaccaatctggtcctaaaatgtttattgacttgagcttgttcttgttgccttccat-ttctgcagGAAAATGGATATCAGTTGCTTTTCTTGAGTGCGCGTGCTATTTCACAAGCTCACCTGACAAGGCAGTTTCTTTTCAACCTTAAGCAG
upper sequence: Vv18s0001g10680.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA04G04060.1 (Glycine max), 3'ss of exon 10
ttggtatgcagtttctattcattgtatacaaca--taattcatgacaagttacaacagaatttgtctttcaaaaacctattctattcttgcatgt---tttgcagGAAAATGGATATCAATTGCTTTTCCTTAGTGCACGAGCAATTTCTCAGGCCTATCACACTAGGCAATTTTTATTCAATCTTAAGCAG
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-----aaactgtacctatgtccttcccataacaactatcctttgatctcttttcaccctgtatggtgtctcatgatcttttcccttgtcgatttcacatttacagGAAAATGGTTATCAACTGCTTTTTCTCAGTGCTCGTTCAATTTCTCAGGCCTATATTACACGGCAATTCTTACTAAACCTTAAACAG
upper sequence: Vv18s0001g10680.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA17G36130.1 (Glycine max), 3'ss of exon 6
ttggtatgcagtttctattcattgtatacaacataattcatgacaagttacaacagaatttgtctttcaaaaacctattctattct-tgcatgttttgcagGAAAATGGATATCAATTGCTTTTCCTTAGTGCACGAGCAATTTCTCAGGCCTATCACACTAGGCAATTTTTATTCAATCTTAAGCAG
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-cgagagttttaggatataaactgtccattaccctgcctatagcaactatcttttgtgtgagtggtatggaattttctcttgtctaatacacactgtacagGGAAATGGCTACCAGCTACTTTTTCTCAGTGCTCGTGCAATATCTCAGGCCTATCATACCAGACAATTTCTATGCAACCTTAAGCAG
upper sequence: Vv18s0001g10680.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA06G04230.1 (Glycine max), 3'ss of exon 11
ttggtatgcagtttctattcattgtatacaaca--taattcatga-caagttacaacagaatt-tgtctttcaaaaacctattctattcttg----catgttttgcagGAAAATGGATATCAATTGCTTTTCCTTAGTGCACGAGCAATTTCTCAGGCCTATCACACTAGGCAATTTTTATTCAATCTTAAGCAG
| || |||| || | |||| | ||| | || || | | | ||||| ||| | | | ||| ||| | || |||| ||||||||||| || ||| ||||||| || ||||| || ||||||||||||||||| || ||||||| ||| | || ||||| |||
------aactgtacctatgtcctgcccataacaaccatcctttgatctcttttcacccgtgtggtgtctctcatgatctt-ttccattgtcaatctcacgttt-acagGAAAATGGTTACCAACTGCTTTTTCTCAGTGCTCGTTCAATTTCTCAGGCCTATATTACACGGCAATTCTTAGTTAACCTTAAACAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agttacaacagaatttgtctttcaaaaacctattctattcttgcatgttttgcagGAAAATGGATATCAATTGCTTTTCCTTAGTGCACGAGCAATTTCTCAGGCCTATCACACTAGGCAATTTTTATTCAATCTTAAGCAG
tttcaaaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttggtatgcagtttctattcattgtatacaacataattcatgacaagttacaacagaatttgtctttcaaaaacctattctattcttgcatgttttgcagGAAAATGGATATCAATTGCTTTTCCTTAGTGCACGAGCAATTTCTCAGGCCTATCACACTAGGCAATTTTTATTCAATCTTAAGCAG
- -gtatgca
- - - - - - - ctattca
- - - - - - - - - - - - - - -aacataa
- - - - - - - - - - - - - - - - - - -tcatgac
- - - - - - - - - - - - - - - - - - - - - - - - - -aacagaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tcaaaaa