Sequence
atgc intronic sequence ATGC exonic sequence...ttgttaaatgatttcaaactaacaaaattgtttaagcgctaactggaaaactcaattatataatagtttaattgcaagctttatatttcatcatctgcagGGTAAAGATGTATTTGAGGCATTCTACAAGAAAGATCTAGCTAAGAGGTTGCTGCTTGGGAAGAGCGCATCAATAGATGCTGAAAAATCGATGATCACAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G704093_T02 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os03g57290.1 (Oryza sativa), 3'ss of exon 7
ttgttaaatgatttcaaactaacaaaattgtttaagcgctaactggaaaactcaattatataatagtttaattgcaagctttatatttcatcatctgcagGGTAAAGATGTATTTGAGGCATTCTACAAGAAAGATCTAGCTAAGAGGTTGCTGCTTGGGAAGAGCGCATCAATAGATGCTGAAAAATCGATGATCACAA
||| | | || || ||| | | ||| | | | | |||| || || | ||| || || || | ||||| ||||||||||||||||||||||||||||| ||||| ||||||||||||||||| |||||||| ||||| ||||||||||||||||| ||||| ||||
ctgtatgaagcttctgggagaagctaatgcacataaaatttactagtacgtagtaacaaataaaagattgaagaaggttaatattcttaattatgttcagGGAAAAGATGTATTTGAGGCATTCTACAAGAAGGATCTGGCTAAGAGGTTGCTGCTGGGGAAGAGTGCATCGATAGATGCTGAAAAATCAATGATAACAA
upper sequence: GRMZM2G704093_T02 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA05G27240.1 (Glycine max), 3'ss of exon 7
------------------------------ttgttaaatgatttcaaactaacaaaattg-tttaagcgctaactggaaaactcaattatataatagtttaattgcaagctttatatt--tcatcatctgc----agGGTAAAGATGTATTTGAGGCATTCTACAAGAAAGATCTAGCTAAGAGGTTGCTGCTTGGGAAGAGCGCATCAATAGATGCTGAAAAATCGATGATCACAA
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gtatgctcaatgttttattggagtagctaataattaattgtttctgaattttttattcaggcttctgccataatcaggcactcctattggtctttctctctatgctgatattggcattattgattttttgttgttagGGCAAGGATGTATTTGAAGCATTCTATAAGAAAGATCTTGCTAAAAGACTGCTTTTAGGAAAGAGTGCTTCTATTGACGCTGAGAAATCTATGATCTCCA
upper sequence: GRMZM2G704093_T02 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA08G10180.1 (Glycine max), 3'ss of exon 7
------------------------------ttgttaaatgatttc-aaactaacaaaattgtttaagcgctaactggaaaactcaattatataatagtttaattgcaagctttatatt--tcatcatctgc----agGGTAAAGATGTATTTGAGGCATTCTACAAGAAAGATCTAGCTAAGAGGTTGCTGCTTGGGAAGAGCGCATCAATAGATGCTGAAAAATCGATGATCACAA
| ||| | |||| || | | | || || ||| | | | ||| | | || | || | ||| | || | || |||| || ||||||||||| |||||||| ||||||||||| ||||| || |||| | || ||||| || || || || | ||| ||||| |||||| | |
gtatgctcaatgttttattggagtagctaataactaacttgtttctgaatttttattcaagcttctgccataatcaggcactcctattggtctttctctccatgctgatattgacattattgatattttgttgttagGGCAAGGATGTATTTGAAGCATTCTATAAGAAAGATCTTGCTAAAAGACTGCTTTTAGGAAAGAGTGCTTCTATTGACGGTGAGAAATCTATGATCTCCA
upper sequence: GRMZM2G704093_T02 (Zea mays), 3'ss of exon 7
lower sequence: PP1S70_181V6.1 (Physcomitrella patens), 3'ss of exon 7
-ttgttaaatgatttcaaactaacaaaattgtttaagcgctaactggaaaactcaattatataatagtttaattgcaagctttatatttcatcatc---tgcagGGTAAAGATGTATTTGAGGCATTCTACAAGAAAGATCTAGCTAAGAGGTTGCTGCTTGGGAAGAGCGCATCAATAGATGCTGAAAAATCGATGATCACAA
| || ||| | | || ||| || ||| || || | | | || || | || || | | ||| || | | |||||||||||||||||||| || ||||||||||| ||||| |||||| | ||||| || || |||||||| || || ||||| || ||||| ||||| |||
cctcttgaattggattgtctttg---aagtgtgtatatttgtacttgataattgtttcagatt-taatgtatttttggatgtgttttttaatggttaaatccagGGTAAAGATGTATTTGAAGCTTTCTACAAGAAGGATCTTGCTAAGCGCTTGCTTCTAGGAAAGAGCGCCTCCATTGATGCAGAGAAATCCATGATATCAA
upper sequence: GRMZM2G704093_T02 (Zea mays), 3'ss of exon 7
lower sequence: PP1S143_152V6.1 (Physcomitrella patens), 3'ss of exon 7
-ttgttaaatgattt-caaactaacaaaattgtttaagcgctaactggaaaactca-attatataatagtttaattgcaagctttatatttcatcatctgcagGGTAAAGATGTATTTGAGGCATTCTACAAGAAAGATCTAGCTAAGAGGTTGCTGCTTGGGAAGAGCGCATCAATAGATGCTGAAAAATCGATGATCACAA
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tatggcggctgatgtactatcaaatgtacttggttgtacac--gctatttgtttcacattatatg-ttgttttttaaaacatcttttctatggtaaaattcagGGAAAAGATGTATTTGAAGCTTTCTACAAGAAGGATCTAGCCAAGCGCCTGCTTCTAGGAAAGAGCGCCTCCATTGATGCAGAGAAGTCCATGATATCAAMapped 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|31357483|gb|CD441840.1|CD441840EST: AGCTGGAGGGCATACTTGATAAAGTTTTGGTCATGTTTCGGTTTATACAA GGTAAAGATGTATTTGAGGCATTCTACAAGAAAGATCTAGCTAAGAGGTTG
genomic: AGCTGGAGGGCATACTTGATAAAGTTTTGGTCATGTTTCGGTTTATACAAgtaagttata ... tcatctgcagGGTAAAGATGTATTTGAGGCATTCTACAAGAAAGATCTAGCTAAGAGGTTG
EST:
gi|31353844|gb|CD438201.1|CD438201EST: AGCTGGAGGGCATACTTGATAAAGTTTTGGTCATGTTTCGGTTTATACAA GGTAAAGATGTATTTGAGGCATTCTACAAGAAAGATCTAGCTAAGAGGTTG
genomic: AGCTGGAGGGCATACTTGATAAAGTTTTGGTCATGTTTCGGTTTATACAAgtaagttata ... tcatctgcagGGTAAAGATGTATTTGAGGCATTCTACAAGAAAGATCTAGCTAAGAGGTTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaaaactcaattatataatagtttaattgcaagctttatatttcatcatctgcagGGTAAAGATGTATTTGAGGCATTCTACAAGAAAGATCTAGCTAAGAGGTTGCTGCTTGGGAAGAGCGCATCAATAGATGCTGAAAAATCGATGATCACAA
gtttaat putative branch site (score: 4)
tttcatc putative PPT
aattatataatagttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgttaaatgatttcaaactaacaaaattgtttaagcgctaactggaaaactcaattatataatagtttaattgcaagctttatatttcatcatctgcagGGTAAAGATGTATTTGAGGCATTCTACAAGAAAGATCTAGCTAAGAGGTTGCTGCTTGGGAAGAGCGCATCAATAGATGCTGAAAAATCGATGATCACAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG