Sequence
atgc intronic sequence ATGC exonic sequence...tactagtgcttgtgattttatacttctttcttcaactgtttgtcgagggcatcatatcctttcctcttatctcatgttagtttcatttgtctacattcagGTAGGGGAGGCAGCATTGTCCATATTACATAGCATGGTATCTGCACATTCAGATTTAGATGATGCTGGTGAGATAGTTACCCCAACTCCTAGAGTGAAAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0016g04420.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os10g42439.1 (Oryza sativa), 3'ss of exon 8
-tactagtgct----tgtgattttatacttctttcttcaactgtttgtcgagggcatcatatcctttcctcttatctcatgttagtttcatttgtctacattcagGTAGGGGAGGCAGCATTGTCCATATTACATAGCATGGTATCTGCACATTCAGATTTAGATGATGCTGGTGAGATAGTTACCCCAACTCCTAGAGTGAAAC
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gtattgaatctacagcctggtatcaaaccgacatgcaaacatgcacgacaattttattttactcatcaattaacacttatgcaaaatgtattt--ctatttacagATTGGGGATGCTGCATTGTCTATATTACACAGTATGGCATCTGCACATTCTGATCTTGATGATGCAGGAGAGATAGTGACACCAACTCCTAGGGTGAAAC
upper sequence: Vv11s0016g04420.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G001895_T01 (Zea mays), 3'ss of exon 2
---------------------------------------------------------------------------------tactagtgcttgt---gattttatacttctttcttcaactgtttgtcgagggcatcatatcctttcctcttatctcatgt---tagtttcatttgtctacattcagGTAGGGGAGGCAGCATTGTCCATATTACATAGCATGGTATCTGCACATTCAGATTTAGATGATGCTGGTGAGATAGTTACCCCAACTCCTAGAGTGAAAC
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gtattaaatctgcagcttgtggttggacacatgctcacacctgtgctgctttttttcttcttagtgttggctatcagcaagcacaaattctttcctcaatttttttgcactttctttgactcgcataaaattgtattattaatttgcactttctttgactcgcataaaactgcatttccttgtacagATTGGGGACACTGCATTATCTATATTACACAGTATGGCATCTGCACGCTCTGATCTTGATGATGCAGGTGAAATAGTAACTCCAACTCCTAGGGTGAAAC
upper sequence: Vv11s0016g04420.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G049288_T01 (Zea mays), 3'ss of exon 8
-tactagtgcttgtgattttatacttctttcttcaactgtttg---tcgagggcatcatatcctttcctcttatctcatgttagtttcatttgtctacattcagGTAGGGGAGGCAGCATTGTCCATATTACATAGCATGGTATCTGCACATTCAGATTTAGATGATGCTGGTGAGATAGTTACCCCAACTCCTAGAGTGAAAC
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ttcctcaaaaat-taattttgcactttctt--tcagtcgcataaaattgtattattaatttgcactttctttgactcacataaaaat-gtatttctttctacagATTGGGGATGCTGCATTATCTATATTACACAGTATGACATCTGCACGGTCCGATCTTGATGATGCAGGTGAAATAGTAACTCCAACTCCTAGGGTGAAAC
upper sequence: Vv11s0016g04420.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA17G12950.1 (Glycine max), 3'ss of exon 8
tactagtgcttgtgattttatacttctttcttcaactgtttgtcgagggcatcatatcctttcctcttatct-catgttagtttcatttgtctacattcagGTAGGGGAGGCAGCATTGTCCATATTACATAGCATGGTATCTGCACATTCAGATTTAGATGATGCTGGTGAGATAGTTACCCCAACTCCTAGAGTGAAAC
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taataaattgtcttgtcaaaaacatttttttgacacttcattctttaatttttttttccttgtatcctactaatagataaaatatgtatat-tgtattcagGTTGGGGACACTGCTTTGTCCATATTGCATAGCATGGTGTCTGCACGTTCAGATTTAGATGATGCTGGAGAGATTGTTACTCCAACTCCTAGAGTAAAGC
upper sequence: Vv11s0016g04420.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA05G08040.1 (Glycine max), 3'ss of exon 8
tactagtgc-ttgtgattttatacttctttcttcaactgtttgt-cgagggcatcatatcctttcctcttatctcatgttagtttcatttgtctacattcagGTAGGGGAGGCAGCATTGTCCATATTACATAGCATGGTATCTGCACATTCAGATTTAGATGATGCTGGTGAGATAGTTACCCCAACTCCTAGAGTGAAAC
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--ctaataaattgtcttatcaaaaacaattttttgacacttcattctttaattttttttccttgtatcctactaatagatagaatatgtatattgtattcagGTTGGGGACACCGCTTTGTCCATATTGCATAGCATGGTGTCGGCACATTCTGATTTAGATGATGCTGGAGAGATTGTTACTCCAACTCCTAGAGTAAAAC
upper sequence: Vv11s0016g04420.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: PP1S107_71V6.1 (Physcomitrella patens), 3'ss of exon 10
------tactagtgcttgtgatttta-tacttctttcttcaactgtttgtcgagggcatcatatcctttcctcttatctcatgttagtttcatttgtctacattcagGTAGGGGAGGCAGCATTGTCCATATTACATAGCATGGTATCTGCACATTCAGATTTAGATGATGCTGGTGAGATAGTTACCCCAACTCCTAGAGTGAAAC
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atcttgagccgtagaggatgttttcgcttcacccatttggaactacttatcaagtgcaatatg-------cgtttaaagtttttaagcgacacctacttgattgcagGTGGGAGAGGTGGCGCTGTCCATCTTACATAGCATGGTTGGGGTTCATTCAGATTTAGATGATGCTGGGGAGCTCATCACCCCAACTCCTCGCGTGAAAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agggcatcatatcctttcctcttatctcatgttagtttcatttgtctacattcagGTAGGGGAGGCAGCATTGTCCATATTACATAGCATGGTATCTGCACATTCAGATTTAGATGATGCTGGTGAGATAGTTACCCCAACTCCTAGAGTGAAAC
tttgtct CT-rich tract
tttcattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tactagtgcttgtgattttatacttctttcttcaactgtttgtcgagggcatcatatcctttcctcttatctcatgttagtttcatttgtctacattcagGTAGGGGAGGCAGCATTGTCCATATTACATAGCATGGTATCTGCACATTCAGATTTAGATGATGCTGGTGAGATAGTTACCCCAACTCCTAGAGTGAAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - -gcttgtg
- - - - - - - - - - - - - - -cttcaac