Sequence
atgc intronic sequence ATGC exonic sequencegtatgtatctagcttattccttagcgattggagcattaacttctctttaggattcaccttttattccttaagcaaataatcgtgtatcatatgagggtgcattgttgctctgctatatttatttgtgtagcttagacgggctttgaatagtatcatggaaatgttgaatcttaagcaaatcattgtgctttctgctgtagGGTCTCTTCCTCTCCCATGGGCAATCAGAATGAAGGTTGCACTCGGAGCAGCAAAGGGTCTGGCTTTCCTTCATGAAGAAGCAGAAAGACCAGTCATTTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G132184_T03 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os09g19700.1 (Oryza sativa), 3'ss of exon 3
gtatgtatctagcttattcctta-gcgattggagcattaacttctctttaggattcaccttttattccttaagcaaataatcgtgtatcatatgagggtgcattgttgctctgctatatttatttgtgtagcttagacgggctttgaatagtatcatggaaatgttgaatcttaagcaaatcattgtgctttctgctgtagGGTCTCTTCCTCTCCCATGGGCAATCAGAATGAAGGTTGCACTCGGAGCAGCAAAGGGTCTGGCTTTCCTTCATGAAGAAGCAGAAAGACCAGTCATTTA
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gtacgtgtctgaccagtttctcaagacattgaaacttcaatttgtatacaatgcctgtgctttaatgaatgaacttatcatt-catatt-tgagtagctcttctgaagtgtttggtcattgcatcttgctgctggaaaaaatattaaatag----atagaaatattgaatcttatatgatttatgat----tcacctatagGGTCTCTTCCTCTCCCTTGGTCCATCAGAATGAAGGTTGCTCTTGGAGCAGCAAAGGGTCTTGCTTTCCTTCATGAAGAAGCAGAAAGACCAGTTATTTA
upper sequence: GRMZM2G132184_T03 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA01G04930.1 (Glycine max), 3'ss of exon 3
gtatgtatctagcttattccttagcgattggagcattaacttctctttaggattcaccttttattccttaagcaaataatcgtgtatcatatgagggtgcattgttgctctgctatatttatttgtgtagcttagacgggctttgaatagtatcatggaaatgttgaatcttaagcaaatcattgtgctttctgctgtagGGTCTCTTCCTCTCCCATGGGCAATCAGAATGAAGGTTGCACTCGGAGCAGCAAAGGGTCTGGCTTTCCTTCATGAAGAAGCAGAAAGACCAGTCATTTA
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---------------------------------------------------------------------------tctatcattggtagaacaagaactcaaaactatt--gctgtatatttttatgtt-------tggattttg--tccttttttatttatgttc--tcatgtggaaattaatgt------------agGATCCATGCCTCTTCCATGGTCCATTAGAATGAAAATTGCACTAGGAGCTGCTAAGGGTCTTGCTTTTCTTCATGAAGAAGCTGAACGACCAGTAATATA
upper sequence: GRMZM2G132184_T03 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA08G40770.1 (Glycine max), 3'ss of exon 3
gtatgtatctagcttattccttagcgattggagcattaacttctctttaggattcaccttttattccttaagcaaataatcgtgtatcatatgagggtgcattgttgctctgctatatttatttgtgtagcttagacgggctttgaatagtatcatggaaatgttgaatcttaagcaaatcattgtgctttctgctgtagGGTCTCTTCCTCTCCCATGGGCAATCAGAATGAAGGTTGCACTCGGAGCAGCAAAGGGTCTGGCTTTCCTTCATGAAGAAGCAGAAAGACCAGTCATTTA
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--------------------------------------------------------------------------------------------gtggatggattatggattggaacttcaaacttctgcttatactctttgttttgattatatccat-----tgtatgttctcatgtaaaagattatatgtttt---gtagGGTCCCTGCCTCTTCCATGGTCCATTAGGATGAAAATTGCACTTGGAGCTGCAAAGGGTCTTGCTTTTCTTCATGAGGAAGCTGAACGACCAGTAATATA
upper sequence: GRMZM2G132184_T03 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA02G02570.1 (Glycine max), 3'ss of exon 3
gtatgtatctagcttattccttagcgattggagcattaacttctctttaggattcaccttttattccttaagcaaataatcgtgtatcatatgagggtgcattgttgctctgctatatttatttgtgtagcttagacgggctttgaatagtatcatggaaatgttgaatcttaagcaaatcattgtgctttctgctgtagGGTCTCTTCCTCTCCCATGGGCAATCAGAATGAAGGTTGCACTCGGAGCAGCAAAGGGTCTGGCTTTCCTTCATGAAGAAGCAGAAAGACCAGTCATTTA
|| | || | | || ||| | | |||| |||| || | | |||| || | || | || | | | | |||| ||| | |||||| || ||||||| |||||| | || |||||||| ||||||| ||||| || |||||||| ||||| |||||||||||||| ||| ||||||| || ||
------------------------------------------------------------------------------------ctctatcttgggtagaactggaactc----aaaactattgctgtatattttatg---tttgtattttgtccc-----tttttatttatgttc---tcat-gtggaaattaatgtagGATCCATTCCTCTTCCATGGTCCATTAGAATGAAAATTGCACTAGGAGCTGCTAAGGGTCTTGCTTTTCTTCATGAAGAAGCTGAACGACCAGTAATATA
upper sequence: GRMZM2G132184_T03 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA18G16300.1 (Glycine max), 3'ss of exon 4
gtatgtatctagcttattccttagcgattggagcattaacttctctttaggattcaccttttattccttaagcaaataatcgtgtatcatatgagggtgcattgttgctctgctatatttatttgtgtagcttagacgggctttgaatagtatcatggaaatgttgaatcttaagcaaatcattgtgctttctgctgtagGGTCTCTTCCTCTCCCATGGGCAATCAGAATGAAGGTTGCACTCGGAGCAGCAAAGGGTCTGGCTTTCCTTCATGAAGAAGCAGAAAGACCAGTCATTTA
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---------------------------------------------------------------------------------------tgaaagagaatggattggaacttcaa-acttctgcttatactcttt------gttgtgattatatccat-----tgtatgttctcatgtacaaaattata-tatgttttgtagGGTCCCTACCTCTTCCATGGTCCATTAGGATGAAAATTGCACTAGGAGCTGCAAAGGGTCTTGCTTTTCTTCACGAGGAAGCTGAACGACCAGTAATATA
upper sequence: GRMZM2G132184_T03 (Zea mays), 3'ss of exon 3
lower sequence: Vv01s0026g01620.t01 (Vitis vinifera), 3'ss of exon 3
gtatgtatctagcttattccttagcgattggagcattaacttctctttaggattcaccttttattccttaagcaaataatcgtgtatcatatgagggtgcattgttgctctgctatatttatttgtgtagcttagacgggctttgaat-agtatcatggaaatgttgaatcttaagcaaatcattgtgctttctgctgtagGGTCTCTTCCTCTCCCATGGGCAATCAGAATGAAGGTTGCACTCGGAGCAGCAAAGGGTCTGGCTTTCCTTCATGAAGAAGCAGAAAGACCAGTCATTTA
|| ||| | ||| | | | || || | | ||| || ||| | ||| || | || || ||| ||||||| | || ||||| |||||||| || || ||||| ||||||| || || || |||||||| || || |||||||| ||||||||||| ||||| || ||
----------------------------------------------------------------------------------------------------atggtttactagagatactgactccctgctttttgataaatgatttgtgagtgcaatatcaattattaatgtttt-ctcatgataacaattttatatgtagGGGCCCTGCCTCTTCCATGGGCCATAAGGATGAAAATTGCACTAGGTGCTGCTAAGGGTCTTGCATTTCTTCATGAGGAAGCAGAAAGGCCAGTTATATA
upper sequence: GRMZM2G132184_T03 (Zea mays), 3'ss of exon 3
lower sequence: Vv14s0108g00380.t01 (Vitis vinifera), 3'ss of exon 3
gtatgtatctagcttattccttagcgattggagcattaacttctctttaggattcaccttttattccttaagcaaataatcgtgtatcatatgagggtgcattgttgctctgctatatttatttgtgtagcttagacgggc--tttgaatagtatcatggaaatgttgaatctta---agcaaatcattgtgctttctgc-tgtagGGTCTCTTCCTCTCCCATGGGCAATCAGAATGAAGGTTGCACTCGGAGCAGCAAAGGGTCTGGCTTTCCTTCATGAAGAAGCAGAAAGACCAGTCATTTA
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--------------------------------------------------------------------------------------------------------ttgactgatagcatcaatttgagaattgtgattagaaaatttcattatggt--tggtggtatttaatgttatctggtatttaatggtgttatgtgcctgcagGGGCCCTGCCTCTTCCTTGGTCCATCAGAATGAAAATTGCACTTGGTGCTGCAAAGGGTCTTGCCTTTCTTCATGAGGAAGCTGAAAGGCCAGTAATATAMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|76282950|gb|DV022518.1|DV022518EST: GGTCTATGAATTCATGCCTCGTGGCAGTTTGGATAACCATCTTTTTAGAA GGTCTCTTCCTCTCCCATGGGCAATCAGAATGAAGGTTGCACTCGGAGCAG
genomic: GGTCTATGAATTCATGCCTCGTGGCAGTTTGGATAACCATCTTTTTAGAAgtatgtatct ... tctgctgtagGGTCTCTTCCTCTCCCATGGGCAATCAGAATGAAGGTTGCACTCGGAGCAG
EST:
gi|148928770|gb|EC873531.2|EC873531EST: GGTCTATGAATTCATGCCTCGTGGCAGTTTGGATAACCATCTTTTTAGAA GGTCTCTTCCTCTCCCATGGGCAATCAGAATGAAGGTTGCACTCGGAGCAG
genomic: GGTCTATGAATTCATGCCTCGTGGCAGTTTGGATAACCATCTTTTTAGAAgtatgtatct ... tctgctgtagGGTCTCTTCCTCTCCCATGGGCAATCAGAATGAAGGTTGCACTCGGAGCAG
EST:
gi|5499049|gb|AI854916.1|AI854916EST: GGTCTATGAATTCATGCCTCGTGGCAGTTTGGATAACCATCTTTTTAGAA GGTCTCTTCCTCTCCCATGGGCAATCAGAATGAAGGTTGCACTCGGAGCAG
genomic: GGTCTATGAATTCATGCCTCGTGGCAGTTTGGATAACCATCTTTTTAGAAgtatgtatct ... tctgctgtagGGTCTCTTCCTCTCCCATGGGCAATCAGAATGAAGGTTGCACTCGGAGCAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatagtatcatggaaatgttgaatcttaagcaaatcattgtgctttctgctgtagGGTCTCTTCCTCTCCCATGGGCAATCAGAATGAAGGTTGCACTCGGAGCAGCAAAGGGTCTGGCTTTCCTTCATGAAGAAGCAGAAAGACCAGTCATTTA
ctttctgct CT-rich tract
aatcttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtatctagcttattccttagcgattggagcattaacttctctttaggattcaccttttattccttaagcaaataatcgtgtatcatatgagggtgcattgttgctctgctatatttatttgtgtagcttagacgggctttgaatagtatcatggaaatgttgaatcttaagcaaatcattgtgctttctgctgtagGGTCTCTTCCTCTCCCATGGGCAATCAGAATGAAGGTTGCACTCGGAGCAGCAAAGGGTCTGGCTTTCCTTCATGAAGAAGCAGAAAGACCAGTCATTTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC