Sequence
atgc intronic sequence ATGC exonic sequencegtgagatgggtgtaacactgtcttttttgttgaatattcgacagttttaatccccttttaacataaaatttctccttcttttctccttgttccagTTGATAATACCATTAAGCTCATTGGTGCTGGTGCCTTTGCTTTTCATCCAACTTTGGAGTGGATTTTTGTTGGTGATAGACGGGGTACACTACTTGCATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0379g00020.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G150772_T01 (Zea mays), 3'ss of exon 3
------------gtgagatg-ggtgtaacactgtcttttttgttgaatattcgacagttttaatccccttttaacataaaatttctccttcttttctccttgttccagTTGATAATACCATTAAGCTCATTGGTGCTGGTGCCTTTGCTTTTCATCCAACTTTGGAGTGGATTTTTGTTGGTGATAGACGGGGTACACTACTTGCATG
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acactataccttacaacgtaagatgcgatgctgtattttatattca-tatgtttttttgtgattttccacccatcggcttcttaatcgcacaatgtttca-gTTGCTGTTGACAGTACAATTAAGCTAATTGGAGCTGGTGCTTTTGGGTTTCACCCGACCCTAGAGTGGATATTTGTTGGTGATAGAGGTGGTACTCTCCT------
upper sequence: Vv00s0379g00020.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G150772_T02 (Zea mays), 3'ss of exon 5
gtgagatgggtgtaacactgtcttttttgttgaatattcgacagttttaatccccttttaacataaaatttctccttcttttctccttgttccagTTGATAATACCATTAAGCTCATTGGTGCTGGTGCCTTTGCTTTTCATCCAACTTTGGAGTGGATTTTTGTTGGTGATAGACGGGGTACACTACTTGCATG
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----gtaagatgcgatgctgtattttatattca-tatgtttttttgtgattttccacccatcggcttcttaatcgcacaatgtttca-gTTGCTGTTGACAGTACAATTAAGCTAATTGGAGCTGGTGCTTTTGGGTTTCACCCGACCCTAGAGTGGATATTTGTTGGTGATAGAGGTGGTACTCTCCT------
upper sequence: Vv00s0379g00020.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT3G50590.1 (Arabidopsis thaliana), 3'ss of exon 6
-----gtgagatgggtgtaacactgtcttttttgttgaatattcgacagttttaatcccctt-----ttaacataaaatttctccttcttttctccttgttccagTTGATAATACCATTAAGCTCATTGGTGCTGGTGCCTTTGCTTTTCATCCAACTTTGGAGTGGATTTTTGTTGGTGATAGACGGGGTACACTACTTGCATG
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gtgagtttaggaggatctcacaa-gtctcattgtttttattcttctcacttggggtatcctgagcaatagccaccagttaaagcagttctttgttatcctcgcagTTGATAATACTATTAAACTTATCGGCGCAAGTTCGTTTGCTTTTCACCCAACACTAGAATGGATTTTTGTTGGAGATAGGAGGGGTACACTTTTAGCGTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acagttttaatccccttttaacataaaatttctccttcttttctccttgttccagTTGATAATACCATTAAGCTCATTGGTGCTGGTGCCTTTGCTTTTCATCCAACTTTGGAGTGGATTTTTGTTGGTGATAGACGGGGTACACTACTTGCATG
ttttaac putative branch site (score: 2)
tttctccttcttttct putative PPT
ttttaacataaaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagatgggtgtaacactgtcttttttgttgaatattcgacagttttaatccccttttaacataaaatttctccttcttttctccttgttccagTTGATAATACCATTAAGCTCATTGGTGCTGGTGCCTTTGCTTTTCATCCAACTTTGGAGTGGATTTTTGTTGGTGATAGACGGGGTACACTACTTGCATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA