Sequence
atgc intronic sequence ATGC exonic sequencegcatgtgattttctcttaacagaagccttattactcctgcacctgcaagtattctcaatcactgatgctcttgcatttcagGTTGGCGATGCTAGTGGAATACAGTCACCTGTTTCTTTTGGAGGTTTTGGAAGCTTGACGAGACATCTTGGCCGTTTGTCTAGTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM5G851815_T02 (Zea mays), 3'ss of exon 11
lower sequence: LOC_Os08g32630.5 (Oryza sativa), 3'ss of exon 10
gcatgtgattttctcttaacagaagcct--------tattactcctgcacctgcaagtattctcaatcactgatgctcttgcatttcagGTTGGCGATGCTAGTGGAATACAGTCACCTGTTTCTTTTGGAGGTTTTGGAAGCTTGACGAGACATCTTGGCCGTTTGTCTAGTG
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gcatgccatttctctgcttcggaagcctgttggctgtacccatttctcccccttaactagtaacgcccttcactgct-ttgcacttcagGTTGGTGATGCTAGTGGAATCCAGTCACCTGTTTCTTTTGGAGGTTTTGGAAGCTTGACAAGGCATCTTGGTCGTTTGTCAAATG
upper sequence: GRMZM5G851815_T02 (Zea mays), 3'ss of exon 11
lower sequence: GLYMA14G05100.1 (Glycine max), 3'ss of exon 12
----------------gcatgtgat-tttctcttaacagaagccttattactcctgcacctgcaagtattctcaatcactgatgctct-tgcatttcagGTTGGCGATGCTAGTGGAATACAGTCACCTGTTTCTTTTGGAGGTTTTGGAAGCTTGACGAGACATCTTGGCCGTTTGTCTAGTG
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gtaaattgcgttttacacttctgaagcctctataaaattaagcc--atctatgatctatcaactaatatta--aagtaatgaagcttcattctctgtagTTTGGTGATGCTAGTGGCATACAATCACCTGTTTCATTTGGTGGATTTGGAAGCTTGACCAGGCACCTGGGGAGACTGTCAGCTG
upper sequence: GRMZM5G851815_T02 (Zea mays), 3'ss of exon 11
lower sequence: AT2G32640.1 (Arabidopsis thaliana), 3'ss of exon 11
-----------------gcatgtgattttctcttaacagaagccttattactcctgcacctg--caagtattctcaatcactgatgctcttgcatttcagGTTGGCGATGCTAGTGGAATACAGTCACCTGTTTCTTTTGGAGGTTTTGGAAGCTTGACGAGACATCTTGGCCGTTTGTCTAGTG
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gttggtttggttcatttatatataagcttccaagataagtttgcggattgataatttgataaactaaataatcaaagttacttacaaattttttactcagTTTGGTGATGCTAGCGGTATTCAATCACCTGTTTCATTTGGGGGTTTTGGAAGTTTGACCAGACACCTTGGAAGATTGTCCAATG
upper sequence: GRMZM5G851815_T02 (Zea mays), 3'ss of exon 11
lower sequence: Vv12s0059g01150.t01 (Vitis vinifera), 3'ss of exon 11
-----gcatgtgattttctcttaacagaagcctta--ttactcctgcacctgcaagtattctcaatcactg-atgctcttgcatttcagGTTGGCGATGCTAGTGGAATACAGTCACCTGTTTCTTTTGGAGGTTTTGGAAGCTTGACGAGACATCTTGGCCGTTTGTCTAGTG
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gtgttttacattatatacttctaaagcctccaatagataatggtcacatatcaaatggaatggaagtgttacaaaatcattctctgcagTTTGGTGATGCTAGCGGCATACAGTCACCAGTTTCATTTGGTGGTTTTGGGAGCTTGACCAGGCACCTTGAGAGGTTGTCAACTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttattactcctgcacctgcaagtattctcaatcactgatgctcttgcatttcagGTTGGCGATGCTAGTGGAATACAGTCACCTGTTTCTTTTGGAGGTTTTGGAAGCTTGACGAGACATCTTGGCCGTTTGTCTAGTG
cactgat putative branch site (score: 3)
tgctctt CT-rich tract
aagtatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcatgtgattttctcttaacagaagccttattactcctgcacctgcaagtattctcaatcactgatgctcttgcatttcagGTTGGCGATGCTAGTGGAATACAGTCACCTGTTTCTTTTGGAGGTTTTGGAAGCTTGACGAGACATCTTGGCCGTTTGTCTAGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG