Sequence
atgc intronic sequence ATGC exonic sequencegtatgcttttcttttataattgtgttatgttgcttcttgtagtctgaaatagtgcatgtccttcctttattttagttctatatcatcttttttttgaccggaaagttctatatcatcttgtcatcgaatattttgaatcctgcagGAGCTTTCATAGTCAATACTGGTAGTTGCCAGCTTATAGATGACTGTGCTCTCAAACAGCTCTTGATTGATGGTACCATAGCTGGTTGCGCATTGGATGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G476107_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os03g03460.1 (Oryza sativa), 3'ss of exon 1
gtatgcttttcttttataattgtgttatgttgcttcttgtagtctgaaatagtgcatgtccttcctttattttagttctatatcatcttttttttgaccggaaagttctatatcatcttgtcatcgaatattttgaatcctgcagGAGCTTTCATAGTCAATACTGGTAGTTGCCAGCTTATAGATGACTGTGCTCTCAAACAGCTCTTGATTGATGGTACCATAGCTGGTTGCGCATTGGATGG
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------------gtaaggtttatcttcaacccctttctttcttctgcttta-tgcattatatattccgaaataatgcttatcatgcctttagttcagccgtaaaacacagtataattttct-------tgttt---atctcacagGAGCATTCATAGTAAATACTGGAAGTTGCCAACTTATAGATGATTGTGCACTCAAACAGCTATTGATTGATGGTACAATAGCTGGTTGTGCATTGGATGG
upper sequence: GRMZM2G476107_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA09G39090.1 (Glycine max), 3'ss of exon 2
gtatgcttttcttttataattgtgttatgttgcttcttgtagtctgaaatagtgcatgtccttcctttattttagttctatatcatcttttttttgaccggaaagttctatatcatcttgtcatcgaatattttgaatcctgcagGAGCTTTCATAGTCAATACTGGTAGTTGCCAGCTTATAGATGACTGTGCTCTCAAACAGCTCTTGATTGATGGTACCATAGCTGGTTGCGCATTGGATGG
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----------------------------gtatttacttgt--tcatatgttatatat-ttctttgattctgttagttatttgtggtttgaattatcttcacaaatt-------cataatgtt-tctaatgttttca------tagGAGCTTTTATTGTAAATACGGGCAGTAGTCAACTTTTGGATGATTGTGCTGTAAAGCAGCTCTTGATTGATGGAACCTTAGCTGGATGTGCTTTGGATGG
upper sequence: GRMZM2G476107_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA18G47240.1 (Glycine max), 3'ss of exon 2
gtatgcttttcttttataattgtgttatgttgcttcttgtagtctgaaatagtgcatgtccttcctttattttagttctatatcatcttttttttgaccggaaagttctatatcatcttgtcatcgaatattttgaatcctgcagGAGCTTTCATAGTCAATACTGGTAGTTGCCAGCTTATAGATGACTGTGCTCTCAAACAGCTCTTGATTGATGGTACCATAGCTGGTTGCGCATTGGATGG
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----------------------------gtatttacttg--atcatatgttatatatttctttgattt-tgttagttatttgcggttttaattatcttcacaaatt-------cataatgt-atctgatgttttca------tagGAGCTTTTATTGTAAATACGGGCAGTAGTCAACTTTTGGATGATTGTGCTGTAAAGCAGCTCTTGATTGATGGAACCTTAGCTGGATGTGCTTTGGATGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttttgaccggaaagttctatatcatcttgtcatcgaatattttgaatcctgcagGAGCTTTCATAGTCAATACTGGTAGTTGCCAGCTTATAGATGACTGTGCTCTCAAACAGCTCTTGATTGATGGTACCATAGCTGGTTGCGCATTGGATGG
ttttgac putative branch site (score: 3)
aatattttgaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgcttttcttttataattgtgttatgttgcttcttgtagtctgaaatagtgcatgtccttcctttattttagttctatatcatcttttttttgaccggaaagttctatatcatcttgtcatcgaatattttgaatcctgcagGAGCTTTCATAGTCAATACTGGTAGTTGCCAGCTTATAGATGACTGTGCTCTCAAACAGCTCTTGATTGATGGTACCATAGCTGGTTGCGCATTGGATGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC