Sequence
atgc intronic sequence ATGC exonic sequencegtgtggaaattgatttttttggtctctattattcctcttgattcttacatttgtgttcagaacatcagctttctttctttcttttttaatttagaagcttctgttcagGACTGCAAGGAATTTCAAGGCGAACTTTTTGGGATCTGCAACTTATTTCGTGATCTATCTGATAAGCTTTTTACCAGTGAGATCATAGAGTTACATGAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0028g03440.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os05g15890.1 (Oryza sativa), 3'ss of exon 6
gtgtggaaattgatttttttggtctctattattcctcttgattcttacatttgtgttcagaacatcagctttctttctttcttttt-taatttagaagcttctgt----tcagGACTGCAAGGAATTTCAAGGCGAACTTTTTGGGATCTGCAACTTATTTCGTGATCTATCTGATAAGCTTTTTACCAGTGAGATCATAGAGTTACATGAAA
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---------cttagtcatttaccagcacatatacctttcacgttttaaga--ataatcacac--ttggctttggtgctttgtttatataaattgtataattatatgattttagGATGACAAAAAATTTCAAGGTGAGCTCTTTGGGATATGCAATCTGTTTCGCGACTTGTCTGATAAGCTTTTCACCAGTGAGATCATTGAAATGCATGGAG
upper sequence: Vv12s0028g03440.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G146041_T01 (Zea mays), 3'ss of exon 6
gtgtggaaattgatttttttggtctctattattcctcttgattcttacatttgtgttcagaacatcagctttctttctttcttttttaatttagaagcttctg-ttcagGACTGCAAGGAATTTCAAGGCGAACTTTTTGGGATCTGCAACTTATTTCGTGATCTATCTGATAAGCTTTTTACCAGTGAGATCATAGAGTTACATGAAA
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----gactgcacaatagtttaattcggattgg-ccttttggtagttgtaa--gttaacagcttactgactagatatctgg--tgtccattttggataattctgatttagGATGACAAGAAATTTCAAGGTGAGCTCTTTGGGATCTGCAATCTTTTCCGTGACTTGTCCGATAAGCTTTTTACTAGTGAGATTATTGAGATGCATGGAG
upper sequence: Vv12s0028g03440.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA12G13180.1 (Glycine max), 3'ss of exon 6
gtgtggaaattgatttttttggtctctattattcctcttgattcttacatttgtgttcagaacatcagctttctttctttcttttttaatttagaagcttctgttcagGACTGCAAGGAATTTCAAGGCGAACTTTTTGGGATCTGCAACTTATTTCGTGATCTATCTGATAAGCTTTTTACCAGTGAGATCATAGAGTTACATGAAA
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gtaccaaattctacgtattttgttt-tgcttttcttcgctttttctaaatatttattttaaa-ataa---------ctctaaacattaacttta---cttccttgcagGACTGCAAGGAATTTCAAGGAGAGCTTTTTGGGATTTCCAATTTATTTCGAGATTTATCTGATAAGTTATTTACCGGTGAGATCATTGAATTGCATGAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgttcagaacatcagctttctttctttcttttttaatttagaagcttctgttcagGACTGCAAGGAATTTCAAGGCGAACTTTTTGGGATCTGCAACTTATTTCGTGATCTATCTGATAAGCTTTTTACCAGTGAGATCATAGAGTTACATGAAA
ttttaat putative branch site (score: 3)
cttctgttc putative PPT
tttctttctttctttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgtggaaattgatttttttggtctctattattcctcttgattcttacatttgtgttcagaacatcagctttctttctttcttttttaatttagaagcttctgttcagGACTGCAAGGAATTTCAAGGCGAACTTTTTGGGATCTGCAACTTATTTCGTGATCTATCTGATAAGCTTTTTACCAGTGAGATCATAGAGTTACATGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA