Sequence
atgc intronic sequence ATGC exonic sequencegtacaatttgtttttcctcctctttctttgattactggaggaaaaaaaaaactttgttttttaaaatgttatttgatgttttgcagTTGAATAACTTGGAGCTTGCCGTTAATCTTGCCAAAAGAGGAAACCTTCCTGGTGCAGAAAACCTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 7
gtacaatttgtttttcctcc--tctttctttgattactggaggaaaaaaaaaactttgttttttaaaatgttatttgatgttttgcagTTGAATAACTTGGAGCTTGCCGTTAATCTTGCCAAAAGAGGAAACCTTCCTGGTGCAGAAAACCTG
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gtatgatcttttacacttctgggtctactttgctgatctgcttgttaaataat-----tctttttaaacacaattt--tggtatgcagCTGAACAACCTTGAGCTTGCTGTTAATCTTGCCAAGAGAGCAAATCTTCCTGGTGCAGAGAACTTG
upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA11G06720.1 (Glycine max), 3'ss of exon 9
gtacaatttgtttttcctcctctttctttgattac-tggaggaaaaaaaaaactttgttttttaaaatgttatttg-atgttttgcagTTGAATAACTTGGAGCTTGCCGTTAATCTTGCCAAAAGAGGAAACCTTCCTGGTGCAGAAAACCTG
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--gtatttaatgtgttataccatgtttttggctacatggatatcttttttggcatctacttctaaatgtttgtttggatattttgcagTTAAATAATTTGGAACTTGCTGTTAGTCTTGCTAAAAGAGGAAACCTCCCTGGTGCAGAAGAATTG
upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA01G38580.1 (Glycine max), 3'ss of exon 9
gtacaatttgtttttcctcctctttctttgattac-tggaggaaaaaaaaaactttgttttttaaaatgttatttg-atgttttgcagTTGAATAACTTGGAGCTTGCCGTTAATCTTGCCAAAAGAGGAAACCTTCCTGGTGCAGAAAACCTG
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--gtatttaatgcgttataccatgtttttggctacatggatatcttttttggcatctacttctaaatgtttgtttggatactttgcagTTAAATAATTTGGAACTTGCTGTTAGTCTTGCTAAAAGAGGAAACCTCCCTGGTGCAGAAGAATTG
upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA14G37510.1 (Glycine max), 3'ss of exon 8
gtacaatttgtttttcctcctctttctttgattactggaggaaaaaaaaaactttgttt------tttaaaatgttatttgatgttttgcagTTGAATAACTTGGAGCTTGCCGTTAATCTTGCCAAAAGAGGAAACCTTCCTGGTGCAGAAAACCTG
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-------gtaatttatatagtatgtttttgggtaacagaattatgggaataatttctttggaacctactaaatgtttctggaatttttgcagCTAAATAATTTGGAACTTGCAGTTAATCTGGCTAAAAGAGGAAACCTCCCTGGTGCAGAAGAATTG
upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA02G39360.1 (Glycine max), 3'ss of exon 9
gtacaatttgtttttcctcctctttctttgattactggaggaaaaaaaaaactttgtt-----ttttaaaatgttatttgatgttttgcagTTGAATAACTTGGAGCTTGCCGTTAATCTTGCCAAAAGAGGAAACCTTCCTGGTGCAGAAAACCTG
||||| | | | | ||| |||| | || | | | || || || || | ||||||| | | |||||||| | ||||| ||||| ||||| |||||||| || |||||||||||||| |||||||||||| | ||
--gtaatttatatatgtgtatgtttttttg-taacggaattatgggaataatttctttggaacctactaaatgtttctgaaacttttgcagCTAAATAATTTGGAACTTGCTGTTAATCTGGCTAAAAGAGGAAACCTCCCTGGTGCAGAAGAATTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttactggaggaaaaaaaaaactttgttttttaaaatgttatttgatgttttgcagTTGAATAACTTGGAGCTTGCCGTTAATCTTGCCAAAAGAGGAAACCTTCCTGGTGCAGAAAACCTG
atttgat putative branch site (score: 5)
aaaaaaaaaactttgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacaatttgtttttcctcctctttctttgattactggaggaaaaaaaaaactttgttttttaaaatgttatttgatgttttgcagTTGAATAACTTGGAGCTTGCCGTTAATCTTGCCAAAAGAGGAAACCTTCCTGGTGCAGAAAACCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA