Sequence
atgc intronic sequence ATGC exonic sequencegtaggatgttgtctactctaaaaagttgatctcaaagttatatgaaactctgctgatatatagatgtatttacatgcactctatggcttctaagattgttcatcatatgattctgcaaaactatgtcatgcatattaacagtagcttactgtactcgttgaagGATTTTGAATTTCATGAACTAGAGGAGGTCCTGCAATATTATCCTCATGGTTACCATGGGGTTGACAAGGAAGGAAGGCCTGTCTACATTGAGTTGCTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G452580_T03 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os02g48990.1 (Oryza sativa), 3'ss of exon 4
gtag-gatgttgtctactctaaaaagttgatctcaaagttatatgaaactctgctgatatatagatgtatttacatgcactctatggcttctaa-gattgttcatcatatgattctgcaaaactatgtcatgcatattaacagtagcttactgtactc-gttgaagGATTTTGAATTTCATGAACTAGAGGAGGTCCTGCAATATTATCCTCATGGTTACCATGGGGTTGACAAGGAAGGAAGGCCTGTCTACATTGAGTTGCTTG
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gtaaagacactgtctattctttga-gttgatctgaaaactgtactacactttgatg---------catttttactaggactctatggatatgaacaattgcttcccacataatttcttta--ctacaacatgtatactgattgcatctaactcttctctgttaaagGATTTTGAATTTCATGAGCTAGAGGAGGTGCTGCAGTATTATCCCCATGGTTATCATGGTGTTGACAAGGAAGGAAGGCCCGTCTATATCGAGTTGCTTG
upper sequence: GRMZM2G452580_T03 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA04G12450.1 (Glycine max), 3'ss of exon 4
gtaggatgttgtctactctaaaaagttgatctcaaagttatatgaaactctgctgatatatagatgtatttacatgcactctatggcttctaagattgttcatcatatgattctgcaaaactatgtcatgcatattaacagtagcttactgtactcgttgaagGATTTTGAATTTCATGAACTAGAGGAGGTCCTGCAATATTATCCTCATGGTTACCATGGGGTTGACAAGGAAGGAAGGCCTGTCTACATTGAGTTGCTTG
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-----------------------------------------------------------att-atttgcttttttaatctttgaatatttcagcatcagcatattttcaatgctagaagac-accggatacatgttttattttggttgg-gtgttt-ttgaagGATTTTGAATTTGGAGAGCTGGAAGAAGTATTGCAGTATTATCCTCAAGGGTACCATGGAGTTGATAAGGAAGGTAGGCCAGTTTACATTGAGAGACTTG
upper sequence: GRMZM2G452580_T03 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA16G17830.1 (Glycine max), 3'ss of exon 3
gtaggatgttgtctactctaaaaagttgatctcaaagttatatgaaactctgctgatatatagatgtatttacatgcactctatggcttctaagattgttcatcatatgattctgcaaaactatgtcatgcatattaacagtagcttactgtactcgttgaagGATTTTGAATTTCATGAACTAGAGGAGGTCCTGCAATATTATCCTCATGGTTACCATGGGGTTGACAAGGAAGGAAGGCCTGTCTACATTGAGTTGCTTG
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--------------------------------------------------------tgtttgtacgtttcaaaatttagaacatgtgttctatgctaggatg-cacttgat---acatgatttggttggttaagtctaatgt---ctgttctgacatttgaagGATTTTGAATTTGAAGAGCTGGAAGAAGTGTTGCAGCATTACCCTCAAGGGTATCATGGAGTTGACAAGGAAGGTAGGCCAGTTTACATTGAAAGGCTTG
upper sequence: GRMZM2G452580_T03 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA06G48060.1 (Glycine max), 3'ss of exon 4
gtaggatgttgtctactctaaaaagttgatctcaaagttatatgaaactctgctgatatatagatgtatttacatgcactctatggcttctaagattgttcatcatatgattctgcaaaactatgtcatgcatattaacagtagcttactgtactcgttgaagGATTTTGAATTTCATGAACTAGAGGAGGTCCTGCAATATTATCCTCATGGTTACCATGGGGTTGACAAGGAAGGAAGGCCTGTCTACATTGAGTTGCTTG
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----------------------------------------------aatctttgaatatttca--gcatcagcatattttctatg--ctagaagacaccttat-gtatg-ttttattttgctttggtgtg-attgtggtgataatgt----------ttgaagGATTTTGAATTTGGAGAGCTGGAAGAAGTATTGCAGTATTATCCTCAAGGGTACCATGGAGTTGATAAGGAAGGTAGGCCAGTCTACATTGAGAGACTTG
upper sequence: GRMZM2G452580_T03 (Zea mays), 3'ss of exon 4
lower sequence: AT1G55690.3 (Arabidopsis thaliana), 3'ss of exon 5
gtaggatgttgtctactctaa----aaagttgatctcaaagttatatgaaactctgctgatatatagatgtatt-tacatgcactctatggcttctaagat-tgttcatcatatgattctgcaaaactatgtcatgcatattaacagtagctt-actgtactcgttga----agGATTTTGAATTTCATGAACTAGAGGAGGTCCTGCAATATTATCCTCATGGTTACCATGGGGTTGACAAGGAAGGAAGGCCTGTCTACATTGAGTTGCTTG
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gttaggagtcatttatttaagtttgaaacctgcttgtttccatatgaaaaaaagaagtaatttcttg-tgtacaacatacttggtatttggatgcaagcatctaatcattctctggattagttgatggaatcaatatctaactcttataattttactatgtatgtgaatggtagGATTTTGATTTCGAAGAGCTTGAAGAAGTTTTGCAATACTATCCTCAAGGCTATCATGGAGTTGATAAGGAAGGAAGACCTGTCTACATTGAAAGACTTG
upper sequence: GRMZM2G452580_T03 (Zea mays), 3'ss of exon 4
lower sequence: Vv19s0015g01160.t01 (Vitis vinifera), 3'ss of exon 4
gtaggatgttgtctactctaaaaagttgatctcaaagttatatgaaactctgctgatatatagatgtatttacatgcactctatggcttctaagattgttcatcatatgattctgcaaaactatgtcatgcatattaacagtagcttactgtactcgttgaagGATTTTGAATTTCATGAACTAGAGGAGGTCCTGCAATATTATCCTCATGGTTACCATGGGGTTGACAAGGAAGGAAGGCCTGTCTACATTGAGTTGCTTG
| ||| | | || ||| | | || | ||| || | ||| | | | ||||| || | ||| | ||| || | | | || | | ||||||| |||||||| | || || ||||| ||| | ||||| || ||||| || |||||||| ||||| |||||||||||||| || ||||||||| ||||
--------------------------------------------------tactgctct-----tggcttttc-tacaatggatgatttatgagaaatgtttttgtt---ttctg-aacattatat--tgcctaatcctaacactgtataat-cgaaatgaagGACTTTGAATTCAAAGAGCTGGAGGATGTCTTACAATACTACCCTCAAGGATACCATGGAGTTGATAAGGAAGGAAGGCCAGTTTACATTGAGAGACTTG
upper sequence: GRMZM2G452580_T03 (Zea mays), 3'ss of exon 4
lower sequence: EFJ21359 (Selaginella moellendorffii), 3'ss of exon 2
gtaggatgttgtctactctaaaaagttgatctcaaagttatatgaaactctgctgatatatagatgtatttacatgcactctatggcttctaagattgttcatcatatgattctgcaaaactatgtcatgcatattaacagtagcttactgtactcgttgaagGATTTTGAATTTCATGAACTAGAGGAGGTCCTGCAATATTATCCTCATGGTTACCATGGGGTTGACAAGGAAGGAAGGCCTGTCTACATTGAGTTGCTTG-
|| || |||| || | | || | | | || | | | ||| | | | ||||||| || ||| ||| | ||||| || |||| |||||||| ||| |||||||||||||||| ||||| ||||| | ||||| ||| |||||
-------------------------------------------------------------------------------------------------gtaaatgatatctcattgtatatcttt-ttgt-cactgtgaggaaaacttcgtttgtg---tacagGATTTCGAGTTTGGTGAGATCGAGGAAGTGAAAAAATACTATCCTCAAGGTCACCATGGGGTTGACAAAGAAGGGAGGCCCATTTACATCGAGC-GCTTGG
upper sequence: GRMZM2G452580_T03 (Zea mays), 3'ss of exon 4
lower sequence: EFJ23906 (Selaginella moellendorffii), 3'ss of exon 2
gtaggatgttgtctactctaaaaagttgatctcaaagttatatgaaactctgctgatatatagatgtatttacatgcactctatggcttctaagattgttcatcatatgattctgcaaaactatgtcatgcatattaacagtagcttactgtactcgttgaagGATTTTGAATTTCATGAACTAGAGGAGGTCCTGCAATATTATCCTCATGGTTACCATGGGGTTGACAAGGAAGGAAGGCCTGTCTACATTGAGTTGCTTG-
|| || |||| || | | || | | | | | | | | | | | | | ||||||| || ||| ||| | ||||| || |||| |||||||| ||| |||||||||||||||| ||||| ||||| | ||||| ||| |||||
-------------------------------------------------------------------------------------------------gtaaatgatatctcattgtatatctttttgttac-tgtgaggaaaacttcgtt----tgtgtacagGATTTCGAGTTTGGTGAGATCGAGGAAGTGAAAAAATACTATCCTCAAGGTCACCATGGGGTTGACAAAGAAGGGAGGCCCATTTACATCGAGC-GCTTGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gattctgcaaaactatgtcatgcatattaacagtagcttactgtactcgttgaagGATTTTGAATTTCATGAACTAGAGGAGGTCCTGCAATATTATCCTCATGGTTACCATGGGGTTGACAAGGAAGGAAGGCCTGTCTACATTGAGTTGCTTG
atattaaca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaggatgttgtctactctaaaaagttgatctcaaagttatatgaaactctgctgatatatagatgtatttacatgcactctatggcttctaagattgttcatcatatgattctgcaaaactatgtcatgcatattaacagtagcttactgtactcgttgaagGATTTTGAATTTCATGAACTAGAGGAGGTCCTGCAATATTATCCTCATGGTTACCATGGGGTTGACAAGGAAGGAAGGCCTGTCTACATTGAGTTGCTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA