Sequence
atgc intronic sequence ATGC exonic sequencegtaggatgttgtctattctaaaaagttgatctcaaaatcttatgaaactctgctgatatattgacgtatacgataagattattcatcatatgcttctgcaaaactatgtcatgcatactaacagtagctaacttcactcattgaagGATTTTGAATTTCATGAGCTAGAGGAGGTCCTGCAGTATTACCCTCATGGTTACCATGGGGTTGACAAGGAAGGAAGGCCTGTGTACATTGAGTTGCTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G014994_T03 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os02g48990.1 (Oryza sativa), 3'ss of exon 4
gtag-gatgttgtctattctaaaaagttgatctcaaaatcttatgaaactctgctgatatattgacgtatacgataagattattcatcatatgcttctgcaaaa--------ctatgtcatgcatactaacagtagctaacttcactc-attgaagGATTTTGAATTTCATGAGCTAGAGGAGGTCCTGCAGTATTACCCTCATGGTTACCATGGGGTTGACAAGGAAGGAAGGCCTGTGTACATTGAGTTGCTTG
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gtaaagacactgtctattctttga-gttgatctgaaaactgtactacactttgatg-catttttactaggactctatggatatgaacaattgcttcccacataatttctttactacaacatgtatactgattgcatctaactcttctctgttaaagGATTTTGAATTTCATGAGCTAGAGGAGGTGCTGCAGTATTATCCCCATGGTTATCATGGTGTTGACAAGGAAGGAAGGCCCGTCTATATCGAGTTGCTTG
upper sequence: GRMZM2G014994_T03 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA04G12450.1 (Glycine max), 3'ss of exon 4
gtaggatgttgtctattctaaaaagttgatctcaaaatcttatgaaactctgctgatatattgacgtatacgataagattattcatcatatgcttctgcaaaactatgtcatgcatacta-acagtagctaacttcactcattgaagGATTTTGAATTTCATGAGCTAGAGGAGGTCCTGCAGTATTACCCTCATGGTTACCATGGGGTTGACAAGGAAGGAAGGCCTGTGTACATTGAGTTGCTTG
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------------------------------------attatttg---cttttttaatctttgaatat-ttcagcatcagcatattttcaatgcta----gaagacaccggatacatgttttattttggttgggtg---tttttgaagGATTTTGAATTTGGAGAGCTGGAAGAAGTATTGCAGTATTATCCTCAAGGGTACCATGGAGTTGATAAGGAAGGTAGGCCAGTTTACATTGAGAGACTTG
upper sequence: GRMZM2G014994_T03 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA16G17830.1 (Glycine max), 3'ss of exon 3
gtaggatgttgtctattctaaaaagttgatctcaaaatcttatgaaactctgctgatatattgacgtatacgataagat-tattcatcatatgcttctgcaaaactatgtcatgcatactaacagtagctaacttcactcattgaagGATTTTGAATTTCATGAGCTAGAGGAGGTCCTGCAGTATTACCCTCATGGTTACCATGGGGTTGACAAGGAAGGAAGGCCTGTGTACATTGAGTTGCTTG
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-----------------------------tgtttgtacgtttcaaaatttagaacatgtgttc-----tatgctaggatgcacttgatacatgatttggttg------gttaagtctaatgtctgtt-ctgacat------ttgaagGATTTTGAATTTGAAGAGCTGGAAGAAGTGTTGCAGCATTACCCTCAAGGGTATCATGGAGTTGACAAGGAAGGTAGGCCAGTTTACATTGAAAGGCTTG
upper sequence: GRMZM2G014994_T03 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA06G48060.1 (Glycine max), 3'ss of exon 4
gtaggatgttgtctattctaaaaagttgatctcaaaatcttatgaaactctgctgatatattgacgtatacgataagattattcatcatatgcttctgcaaaactatgtcatgcatactaacagtagctaacttcactcattgaagGATTTTGAATTTCATGAGCTAGAGGAGGTCCTGCAGTATTACCCTCATGGTTACCATGGGGTTGACAAGGAAGGAAGGCCTGTGTACATTGAGTTGCTTG
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---------------------------aatctttgaatatttcagcat-----cagcatattttc-tatgctagaagacaccttat-gtatgtttt------attttgctttg-gtg-tgattgtggtga----taatgtttgaagGATTTTGAATTTGGAGAGCTGGAAGAAGTATTGCAGTATTATCCTCAAGGGTACCATGGAGTTGATAAGGAAGGTAGGCCAGTCTACATTGAGAGACTTG
upper sequence: GRMZM2G014994_T03 (Zea mays), 3'ss of exon 3
lower sequence: Vv19s0015g01160.t01 (Vitis vinifera), 3'ss of exon 4
gtaggatgttgtctattctaaaaagttgatctcaaaatcttatgaaactctgctgatatattgacgtatacgataagattattcatcatatgcttctgcaaaactatgtcatgca-tactaacagtagctaacttcactcattgaagGATTTTGAATTTCATGAGCTAGAGGAGGTCCTGCAGTATTACCCTCATGGTTACCATGGGGTTGACAAGGAAGGAAGGCCTGTGTACATTGAGTTGCTTG
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----------------------------------------tactgctcttggcttttctac-aatggatgatttatgagaaatgtttttgt-tttctg-aacattatattgcctaatcctaacactgtataat----cgaaatgaagGACTTTGAATTCAAAGAGCTGGAGGATGTCTTACAATACTACCCTCAAGGATACCATGGAGTTGATAAGGAAGGAAGGCCAGTTTACATTGAGAGACTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcttctgcaaaactatgtcatgcatactaacagtagctaacttcactcattgaagGATTTTGAATTTCATGAGCTAGAGGAGGTCCTGCAGTATTACCCTCATGGTTACCATGGGGTTGACAAGGAAGGAAGGCCTGTGTACATTGAGTTGCTTG
cttcactc CT-rich tract
aaaactat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaggatgttgtctattctaaaaagttgatctcaaaatcttatgaaactctgctgatatattgacgtatacgataagattattcatcatatgcttctgcaaaactatgtcatgcatactaacagtagctaacttcactcattgaagGATTTTGAATTTCATGAGCTAGAGGAGGTCCTGCAGTATTACCCTCATGGTTACCATGGGGTTGACAAGGAAGGAAGGCCTGTGTACATTGAGTTGCTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA