Sequence
atgc intronic sequence ATGC exonic sequencegtttgttatatctttttagcttgattgttgatctgaatttatgctgtgtaaatagtttctcctttttattgttctcatccttagGTCAGAAGCAAAGGATTTGTTGGGGGATGATTGGGTGCAAATACACCGAAGGATTGTACAGCAGCATGCAAACCAGTATAAGAGGGTATCTTGGGCAAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0007g02340.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G074530_T01 (Zea mays), 3'ss of exon 2
gtttgttatatctttttagct--tgattgttgatctgaatttatgct-gtgtaaatagtttctcctttttattgttctcatccttagGTCAGAAGCAAAGGATTTGTTGGGGGATGATTGGGTGCAAATACACCGAAGGATTGTACAGCAGCATGCAAACCAGTATAAGAGGGTATCTTGGGCAAAG
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-----gtatgttcttataccaagtaatgctaggaagaaagtaacaatagtgtgtgtactaccttatactctcttttctgtcactcagATCAGAAGCCAAAGATTTGTTGGGTGATGACTGGATTCAAAGGCACCGAAGGATTGTACAACAAAATGCCAATCAGTATAGAAGGATTGCTTGGGCGAAG
upper sequence: Vv08s0007g02340.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA13G05040.1 (Glycine max), 3'ss of exon 8
gtttgttatatctttttagcttgattgttg-atctgaattt---atgctgtgtaaatagtttctcctttttattgttctcatccttagGTCAGAAGCAAAGGATTTGTTGGGGGATGATTGGGTGCAAATACACCGAAGGATTGTACAGCAGCATGCAAACCAGTATAAGAGGGTATCTTGGGCAAAG
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----gttggatctttttcctcctaatatagtatgcaaggttgagattctatgtgggtccaattctattttgcatattgt-acttgtagGTCAGAGGCAAAGGATATGTTAGGGGATGATTGGGTGCAAATACATAGAAGAATTGTTCAGCAACATGCAAATCAATATAAAAGGATCTCTTGGGCAAAG
upper sequence: Vv08s0007g02340.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT5G52340.1 (Arabidopsis thaliana), 3'ss of exon 8
gtttg-ttatatctttttagcttgat---tgttgatctgaatttatgctgtgtaaata-gtttctcctttttattgttctcatccttagGTCAGAAGCAAAGGATTTGTTGGGGGATGATTGGGTGCAAATACACCGAAGGATTGTACAGCAGCATGCAAACCAGTATAAGAGGGTATCTTGGGCAAAG
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gtttggttctgtttcttcggctccatctttcttaaacagaaccagaaaagcctaaacataatcctgagttagagttacatttttcacagGTCAGAAGCAAAAGATTTATTAGGTGATGATTGGGTTCAAATACATCGAAGAATTGTACAACAACATGCAAATCAGTACAAGAGAGTTTCTTGGGCAAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gatctgaatttatgctgtgtaaatagtttctcctttttattgttctcatccttagGTCAGAAGCAAAGGATTTGTTGGGGGATGATTGGGTGCAAATACACCGAAGGATTGTACAGCAGCATGCAAACCAGTATAAGAGGGTATCTTGGGCAAAG
tgttgat putative branch site (score: 4)
tttctcctttttattg putative PPT
tttttattgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgttatatctttttagcttgattgttgatctgaatttatgctgtgtaaatagtttctcctttttattgttctcatccttagGTCAGAAGCAAAGGATTTGTTGGGGGATGATTGGGTGCAAATACACCGAAGGATTGTACAGCAGCATGCAAACCAGTATAAGAGGGTATCTTGGGCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG