Sequence
atgc intronic sequence ATGC exonic sequence...gcttaaatgatcaagcctttatttttggttgaaaaaacaataaagatgcagatgatagtgaaatatccgaaaacctgacattcaacttctacatacccagGTTGGCTTATCTTCACGAGGGGCTGGAACCGAAGGTTGTTCACCGTGACATCAAAGCTAGCAACATTCTTCTTGACCAGCAGTGGAACGCTAGAGTATCC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G014366_T03 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os03g03410.1 (Oryza sativa), 3'ss of exon 3
gcttaaatgatcaagcctttatttttggttgaaaaaacaat-------aaagatgcagatgatagtgaaatatccgaaaacctgacattcaacttctacatacccagGTTGGCTTATCTTCACGAGGGGCTGGAACCGAAGGTTGTTCACCGTGACATCAAAGCTAGCAACATTCTTCTTGACCAGCAGTGGAACGCTAGAGTATCC
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----atattgtcagtggcttgctta-aacaacatcaacagttcttttaaaagatgggtttgatagggaaacacatgaatac-tgacacccaacttctgc-tctctagGCTGGCCTATCTTCATGAGGGGCTGGAACCGAAGGTTGTCCATCGTGACATCAAATCTAGCAATATCCTTCTTGACCAGCAATGGAATGCTAAAGTGTCA
upper sequence: GRMZM2G014366_T03 (Zea mays), 3'ss of exon 3
lower sequence: PP1S358_6V6.1 (Physcomitrella patens), 3'ss of exon 3
gcttaaatgatcaagcctttatttttggttgaaaaaacaataaagatgcagatgatagtgaaatatccgaaaacctgacattcaacttc-tacatacccagGTTGGCTTATCTTCACGAGGGGCTGGAACCGAAGGTTGTTCACCGTGACATCAAAGCTAGCAACATTCTTCTTGACCAGCAGTGGAACGCTAGAGTATCC
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-tttcttccctttcctttttacgtttgatttgttttgttttgttttgttttttttttttgttttttgttttttttaaatgtgcattgtgacttgtgattagGTTGGCATATTTGCATGAGGCTTTGGAGCCGAAGGTTGTGCACCGTGATATCAAATCCAGCAACATTCTTGTGGATGCGCAATGGAATGCTAAGGTGTCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgcagatgatagtgaaatatccgaaaacctgacattcaacttctacatacccagGTTGGCTTATCTTCACGAGGGGCTGGAACCGAAGGTTGTTCACCGTGACATCAAAGCTAGCAACATTCTTCTTGACCAGCAGTGGAACGCTAGAGTATCC
acctgac putative branch site (score: 3)
cttctac putative PPT
tgaaatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcttaaatgatcaagcctttatttttggttgaaaaaacaataaagatgcagatgatagtgaaatatccgaaaacctgacattcaacttctacatacccagGTTGGCTTATCTTCACGAGGGGCTGGAACCGAAGGTTGTTCACCGTGACATCAAAGCTAGCAACATTCTTCTTGACCAGCAGTGGAACGCTAGAGTATCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA