Sequence
atgc intronic sequence ATGC exonic sequence...cgtcttcgtattcaattaagaacatcaagaagagaacattctaaaataaatatcattggttgaattgctgacattctttgtacaatatctttcccaccagGTATCAAATATCAACTTTGGCAACAAAGCTTGGTGTCAGAAATATTGCATTCCTTGGATCTGGTTTATTATTAGCAAACTATATTGCTGCTATTGCTGTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G113476_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os07g38850.1 (Oryza sativa), 3'ss of exon 6
---cgtcttcgtattcaattaagaacatcaagaagagaacattctaaaataaatatcattggttgaattgctgacattct--ttgtacaatatctttcccaccagGTATCAAATATCAACTTTGGCAACAAAGCTTGGTGTCAGAAATATTGCATTCCTTGGATCTGGTTTATTATTAGCAAACTATATTGCTGCTATTGCTGTA
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aggagcaattggaagcagttctgat-----acactataccattgtttaataaatgtcaatgagtggactactaacactctaattatatcttttttcctcattcagGTATCAAATATCAACTTTGGCGACAAAGCTCGGTGTCAGAAACATTGCATTTCTTGGCTCTGGTTTATTGATAGCAAATTATGTTGCTGCTATTGCTGTA
upper sequence: GRMZM2G113476_T01 (Zea mays), 3'ss of exon 6
lower sequence: AT3G11945.1 (Arabidopsis thaliana), 3'ss of exon 6
--------------------------------------------cgtcttcgtattcaattaagaacatcaagaagagaacattctaaaataaatatcattggttgaattgctga--cattctttgt--acaatatcttt--------cccaccagGTATCAAATATCAACTTTGGCAACAAAGCTTGGTGTCAGAAATATTGCATTCCTTGGATCTGGTTTATTATTAGCAAACTATATTGCTGCTATTGCTGTA
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gtaagtaactgcacgcataaccattttctttccgctctttggctcaatccatttgacagtcaaagacaatgtttaaccagctccgtttgatatattgtctttatgtgtttgttcaagcatgtttagttaatcatgcctttgattgatcttgaatagGTTCCAAATATCAACCCTGGCAACAAAACTTGGAGTGAGAAACATTGCATTCCTCGGTTCTGGACTTCTGCTAGTAAATTATGTTTCAGCCATATCACTA
upper sequence: GRMZM2G113476_T01 (Zea mays), 3'ss of exon 6
lower sequence: Vv08s0007g07200.t01 (Vitis vinifera), 3'ss of exon 6
cgtcttcgtattcaattaagaacatcaagaagagaacattctaaaataaatatcattggttgaattgctgacat--------tctttgtacaatatctttcccaccagGTATCAAATATCAACTTTGGCAACAAAGCTTGGTGTCAGAAATATTGCATTCCTTGGATCTGGTTTATTATTAGCAAACTATATTGCTGCTATTGCTGTA
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----ttcaaaccaaaccaa--accccatg--gtgctcattaatccataagcctccctctctctactatcaatatcgatctgatatgtgcatcataaattgttttatagGTATCAGATATCAACCTTGGCAACAAAGCTTGGTGTTAGAAACATTGCTTTTCTTGGTTCTGGACTTTTGCTGGTAAATTATATTGGTTCCATTTTGGCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ataaatatcattggttgaattgctgacattctttgtacaatatctttcccaccagGTATCAAATATCAACTTTGGCAACAAAGCTTGGTGTCAGAAATATTGCATTCCTTGGATCTGGTTTATTATTAGCAAACTATATTGCTGCTATTGCTGTA
tgctgac putative branch site (score: 2)
tctttcccacc putative PPT
aatatcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cgtcttcgtattcaattaagaacatcaagaagagaacattctaaaataaatatcattggttgaattgctgacattctttgtacaatatctttcccaccagGTATCAAATATCAACTTTGGCAACAAAGCTTGGTGTCAGAAATATTGCATTCCTTGGATCTGGTTTATTATTAGCAAACTATATTGCTGCTATTGCTGTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT