Sequence
atgc intronic sequence ATGC exonic sequencegtaatttatatataagggctttcttgggctaaaattttcctattttgctatgtttcaacttgcatcatcatatttgtaaattgaaaggaaagttattaaattgtcagGTGTGCTGGCTACTACAGCGAAGCTGATGCTCCTAGTCGCAGACTTGGCAAGCCTTTGATATTTTGCAGAACTGAGAGTGATAGCCCCATGGAGAATGGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G147884_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os04g40040.1 (Oryza sativa), 3'ss of exon 5
gtaatttata-tataagggctttcttgggctaaaattttcctattttgctatgtttcaacttgcatcatcatatttgtaa-attgaaaggaaagttatt--aaattgtcagGTGTGCTGGCTACTACAGCGAAGCTGATGCTCCTAGTCGCAGACTTGGCAAGCCTTTGATATTTTGCAGAACTGAGAGTGATAGCCCCATGGAGAATGGT
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gtaagctaagctttaggaaacttcttttgttttatatctcatagctggctttgttgtc-ttagaatcatcatatggaaaatgataatgtgaacattgttctaaatcatcagGTGTGCTGGCTACTACAGTGATGCTGATGCTCCCAGCCGCAGACTTGGCAAGCCTCTAATCTTTTGCAGAACTGACAGTGATAGTCCCATGGAGAATGGT
upper sequence: GRMZM2G147884_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA08G38990.1 (Glycine max), 3'ss of exon 4
-gtaatttatatataagggctttcttgggctaaaattttcctattttgctatgtttcaact-tgcatcatcatatttgtaaattgaaaggaaagttattaaattgtcagGTGTGCTGGCTACTACAGCGAAGCTGATGCTCCTAGTCGCAGACTTGGCAAGCCTTTGATATTTTGCAGAACTGAGAGTGATAGCCCCATGGAGAATGGT
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gttagttactgcttcaaga--ttatttgattggcatatt---atgagaatttatttcagctatgtcttgttctatctaatacttgt------ggtgttgaaacttgtagGTGTGCTGGATATCACAGTGAAGCTGATGCTCCTAGCCGGAGACTTGCTAAACCACTAATCTTTTGTAGGACTGAAAGTGACTGCCCTATGGAAAATGGC
upper sequence: GRMZM2G147884_T01 (Zea mays), 3'ss of exon 4
lower sequence: Vv17s0000g09100.t01 (Vitis vinifera), 3'ss of exon 4
gtaatttatatataagggctttcttgggctaaaattttcctattttgctatgtttcaactt---gcatcatcatatttgtaaattgaaaggaaagttattaaattgtcagGTGTGCTGGCTACTACAGCGAAGCTGATGCTCCTAGTCGCAGACTTGGCAAGCCTTTGATATTTTGCAGAACTGAGAGTGATAGCCCCATGGAGAATGGT
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gttggttaaatctacgttccaattctttctacagatacttattgtagatgaatttcaaatttaggcaatgttttaatcataagttggccccacatacatt----tactagGTGTGTTGGTTACCATGGTGAAGCTGATGCTCCTAGCCGTAGACTTGCCAAACCACTCATATTCTGTAGAACAGAGAGTGATTGCCCTATGGAAAATGGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttcaacttgcatcatcatatttgtaaattgaaaggaaagttattaaattgtcagGTGTGCTGGCTACTACAGCGAAGCTGATGCTCCTAGTCGCAGACTTGGCAAGCCTTTGATATTTTGCAGAACTGAGAGTGATAGCCCCATGGAGAATGGT
atatttgtaaattgaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatttatatataagggctttcttgggctaaaattttcctattttgctatgtttcaacttgcatcatcatatttgtaaattgaaaggaaagttattaaattgtcagGTGTGCTGGCTACTACAGCGAAGCTGATGCTCCTAGTCGCAGACTTGGCAAGCCTTTGATATTTTGCAGAACTGAGAGTGATAGCCCCATGGAGAATGGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA