Sequence
atgc intronic sequence ATGC exonic sequencegttgttagactccacattgagtggacttgttaatggtttgttacgttacttcttgtgagcttcagtttctatgcttgttcttggttttgcagCAAGCGTCTTCCATCGGGATCTTAAGCCCAAGAATATTCTAGCCAATGCTGACTGCAAGCTGAAGATTTGTGATTTTGGCCTTGCCCGCGTTTCATTCAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G062761_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os05g50120.1 (Oryza sativa), 3'ss of exon 2
gttgttagactccacattgagtggacttgttaatggtttgttacgttacttcttgtgagcttcagtttctatgcttgttcttggttttgcagCAAGCGTCTTCCATCGGGATCTTAAGCCCAAGAATATTCTAGCCAATGCTGACTGCAAGCTGAAGATTTGTGATTTTGGCCTTGCCCGCGTTTCATTCAA
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-gtagtagattccatatagtaggaaatcggtaatttctt-ttgcttatgtggttgacacgctcactttctg-----gtttct--ctttgcagCAAGTGTTTTCCATCGGGATCTTAAGCCCAAGAATATTCTAGCCAATGCTGATTGCAAGCTGAAGGTTTGCGATTTCGGCCTTGCCCGAGTGTCATTTAA
upper sequence: GRMZM2G062761_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA08G05700.1 (Glycine max), 3'ss of exon 2
gttgttagactccacattgagtggacttgttaatggtttgttacgttacttcttgtgagcttcagtttctatgct----tgttcttggttttgcagCAAGCGTCTTCCATCGGGATCTTAAGCCCAAGAATATTCTAGCCAATGCTGACTGCAAGCTGAAGATTTGTGATTTTGGCCTTGCCCGCGTTTCATTCAA
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-------------gtattgcat--ccttatta-taaccaggtccttgactttttt--agatagagatattaaactagtgtatcatttttcttgcagCAAACGTGTTTCATCGTGATTTGAAGCCAAAAAATATTCTTGCTAACGCTGATTGCAAACTAAAAATATGTGATTTTGGGCTTGCTCGAGTTTCATTTAA
upper sequence: GRMZM2G062761_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA07G11470.1 (Glycine max), 3'ss of exon 2
gttgttagactccacattgagtggacttgttaatggtttgtta--cgttacttcttgtgagcttcagtttctatgcttgttcttggttttgcagCAAGCGTCTTCCATCGGGATCTTAAGCCCAAGAATATTCTAGCCAATGCTGACTGCAAGCTGAAGATTTGTGATTTTGGCCTTGCCCGCGTTTCATTCAA
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--------------------gtatccttgtaattaagtccttgactgttgctgatagtgataataaa---ctaaaataacattttttcttgcagCAAATGTGTTTCATCGTGACTTGAAGCCAAAAAATATTCTAGCTAATGCTGATTGCAAGCTAAAATTATGTGATTTTGGACTTGCTCGAGTTTCATTTAA
upper sequence: GRMZM2G062761_T02 (Zea mays), 3'ss of exon 2
lower sequence: AT1G18150.3 (Arabidopsis thaliana), 3'ss of exon 3
---gttgttagactccacattgagtggacttgttaatggtttgttacgttacttcttgtgagcttcagtttctatgcttgttcttggttttgcagCAAGCGTCTTCCATCGGGATCTTAAGCCCAAGAATATTCTAGCCAATGCTGACTGCAAGCTGAAGATTTGTGATTTTGGCCTTGCCCGCGTTTCATTCAA
| | | | ||| | ||| || || | | | || || | | | | | ||||| ||||| |||| | || || ||||||||| | || || ||||| |||||||| |||||||| ||||| ||||||| ||||||||||| || || |||||||| || ||
gttagtttctggttttacac--attggtctctttcgatcctcatgatttttgttatagataatattgaaacacttaagggttctctgtttt-cagCTAATGTGTTTCATCGGGATTTGAAACCGAAGAACATTCTAGCTAATGCTGATTGCAAATTGAAGATCTGTGATTTTGGGCTGGCTCGCGTTTCTTTTAA
upper sequence: GRMZM2G062761_T02 (Zea mays), 3'ss of exon 2
lower sequence: AT3G18040.2 (Arabidopsis thaliana), 3'ss of exon 1
gttgttagactccacattgagtggacttgttaatggtttgttacgttacttcttgtgagcttcagtttc-tatgcttgttcttggttt--tgcagCAAGCGTCTTCCATCGGGATCTTAAGCCCAAGAATATTCTAGCCAATGCTGACTGCAAGCTGAAGATTTGTGATTTTGGCCTTGCCCGCGTTTCATTCAA
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---gcgagtgccttggcttgagaaattcgtgtttccttttgtccattactgcttttcaaactcaatctgatggaaaacttttttattcgatacagCTAATGTGTTTCATCGTGATTTGAAGCCTAAAAATATTCTAGCCAACTCTGATTGCAAGTTGAAGATTTGCGACTTTGGGCTTGCTCGAGTGTCCTTTAA
upper sequence: GRMZM2G062761_T02 (Zea mays), 3'ss of exon 2
lower sequence: AT1G73670.1 (Arabidopsis thaliana), 3'ss of exon 2
gttgttagactccacattgagtggacttgttaatggtttgtta-cgttacttcttgtgagc-ttcagtttctatgcttgttcttggttttgcagCAAGCGTCTTCCATCGGGATCTTAAGCCCAAGAATATTCTAGCCAATGCTGACTGCAAGCTGAAGATTTGTGATTTTGGCCTTGCCCGCGTTTCATTCAA
||||| || | | | || || | | ||||| | ||| | | || | ||| | | | ||| |||||||| | || || ||||||||| | || || ||||| ||||| || |||||||| |||||| ||||||||||||| ||||| || || || || || || ||
---gttagtttc-----taaacagtctctttcact-tgtgttatcattatgatataaggttattgaagagctacgtctctgtttg--tttgcagCGAATGTGTTTCATCGGGATTTGAAACCAAAGAACATTCTTGCTAATGCTGATTGCAAGTTGAAGATTTGTGACTTTGGTCTAGCTCGTGTATCTTTTAA
upper sequence: GRMZM2G062761_T02 (Zea mays), 3'ss of exon 2
lower sequence: Vv01s0011g04920.t01 (Vitis vinifera), 3'ss of exon 2
gttgttagactccacattgagtggacttgttaatggtttgttacgttacttcttgtgagcttcagtttctatgcttgt-tcttggttttgcagCAAGCGTCTTCCATCGGGATCTTAAGCCCAAGAATATTCTAGCCAATGCTGACTGCAAGCTGAAGATTTGTGATTTTGGCCTTGCCCGCGTTTCATTCAA
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---gttggacctttgtttaaa--attgtgccattatcgtatttcttttggttctatattctcaatgaccaataatattgtctttattttgcagCAAATGTGTTTCATAGAGATTTAAAGCCAAAAAACATCCTTGCTAATGCAGACTGCAAACTGAAGATTTGTGATTTTGGGCTTGCTCGCGTGTCATTTAA
upper sequence: GRMZM2G062761_T02 (Zea mays), 3'ss of exon 2
lower sequence: Vv17s0000g02570.t01 (Vitis vinifera), 3'ss of exon 2
gttgttagactccacattgagtggacttgttaatggtttgttacgttacttcttgtgagcttcagtttctatgcttgttcttggtt-ttgcagCAAGCGTCTTCCATCGGGATCTTAAGCCCAAGAATATTCTAGCCAATGCTGACTGCAAGCTGAAGATTTGTGATTTTGGCCTTGCCCGCGTTTCATTCAA
|||| | | || | | | | | | ||||||| || | | ||| | | || | || | | || || |||||| || || ||||| ||| | ||||| || |||||||| || ||||| ||||||||| ||||||||||||||||||| ||||| || || ||||||||
gttggtgcttttcagagatattatagcc--tcaccgtttgtttgcttttatgtcctgaatggccactaataaaaattttatggtttcttccagCAAATGTGTTTCATCGAGATTTGAAGCCAAAAAATATTCTTGCTAATGCCGACTGCAAGTTGAAGATTTGTGATTTTGGGCTTGCTCGGGTGTCATTCAA
upper sequence: GRMZM2G062761_T02 (Zea mays), 3'ss of exon 2
lower sequence: PP1S87_157V6.2 (Physcomitrella patens), 3'ss of exon 2
-------gttgttagactccacattgagtggacttgttaatggtttgttacgt---tacttcttgtgagcttcagtttctatgcttgttcttggttttgcagCAAGCGTCTTCCATCGGGATCTTAAGCCCAAGAATATTCTAGCCAATGCTGACTGCAAGCTGAAGATTTGTGATTTTGGCCTTGCCCGCGTTTCATTCAA
|| || | | || || | | | | | ||| | | | | | || | || | | | | | || | | ||| | || || ||||| ||||| ||||| |||||| | | || || ||||| ||||||||||| |||||||||||||| ||||| || || | ||||
tgaaaatgtaactatatttcaagaagaatag--tggattatgatctaatgaatgtgtgtctcgtttggatgttgacgtgcttctatttgggtgatgctttagCTAATGTATTTCATCGCGATCTCAAGCCAAAGAATGTATTGGCAAACGCTGATTGCAAGCTGAAAATTTGTGATTTTGGACTTGCTCGGGTGGCTTTCAG
upper sequence: GRMZM2G062761_T02 (Zea mays), 3'ss of exon 2
lower sequence: EFJ26549 (Selaginella moellendorffii), 3'ss of exon 2
gttgttagactccacattgagtggacttgttaatggtttgttacgttacttcttgtgagcttcagtttctatgcttgttcttggttttgcagCAAGCGTCTTCCATCGGGATCTTAAGCCCAAGAATATTCTAGCCAATGCTGACTGCAAGCTGAAGATTTGTGATTTTGGCCTTGCCCGCGTTTCATTCAA
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-----------------------gtatgattttctctcctcgagatgattgtctctgaaattgttttccctcgcgtg-------tgttgcagCGAACGTTTTCCATCGGGACTTAAAGCCCAAGAACGTTCTAGCCAACGCTAACTGTAAGCTAAAGATATGCGATTTTGGACTCGCCCGAGTGGCGTTTAAMapped 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|74245616|gb|DT653530.1|DT653530EST: CCAGTTCTTCTTGTACCAGCTGCTCCGTGGGATGAAGTACATCCATGCAG CAAGCGTCTTCCATCGGGATCTTAAGCCCAAGAATATTCTAGCCAATGCTG
genomic: CCAGTTCTTCTTGTACCAGCTGCTCCGTGGGATGAAGTACATCCATGCAGgttgttagac ... ggttttgcagCAAGCGTCTTCCATCGGGATCTTAAGCCCAAGAATATTCTAGCCAATGCTG
EST:
gi|76018133|gb|DT945303.1|DT945303EST: CCAGTTCTTCTTGTACCAGCTGCTCCGTGGGATGAAGTACATCCATGCAG CAAGCGTCTTCCATCGGGATCTTAAGCCCAAGAATATTCTAGCCAATGCTG
genomic: CCAGTTCTTCTTGTACCAGCTGCTCCGTGGGATGAAGTACATCCATGCAGgttgttagac ... ggttttgcagCAAGCGTCTTCCATCGGGATCTTAAGCCCAAGAATATTCTAGCCAATGCTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgttacgttacttcttgtgagcttcagtttctatgcttgttcttggttttgcagCAAGCGTCTTCCATCGGGATCTTAAGCCCAAGAATATTCTAGCCAATGCTGACTGCAAGCTGAAGATTTGTGATTTTGGCCTTGCCCGCGTTTCATTCAA
tttctat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttgttagactccacattgagtggacttgttaatggtttgttacgttacttcttgtgagcttcagtttctatgcttgttcttggttttgcagCAAGCGTCTTCCATCGGGATCTTAAGCCCAAGAATATTCTAGCCAATGCTGACTGCAAGCTGAAGATTTGTGATTTTGGCCTTGCCCGCGTTTCATTCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA