Sequence
atgc intronic sequence ATGC exonic sequencegtcagtgtctgagctttagtcagacattttttaagtttgtttggcttatatggctcctgtcttaaaacaataatctgaaatcattttgtgtttttcatagGACTTCGAATACACTGAGTTGGACGCTGTTTTGCAATATTATCCTCATGGTTATCATGGAGTTGACAAAGAGGGGAGACCCGTTTATATTGAAAGGCTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G171354_T03 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os02g04020.1 (Oryza sativa), 3'ss of exon 4
gtcagtgtctgagctttagtcagacattttttaagtttgtttggcttatatggctcctgtcttaaaacaataatctgaaatcattttgtgtttttcatagGACTTCGAATACACTGAGTTGGACGCTGTTTTGCAATATTATCCTCATGGTTATCATGGAGTTGACAAAGAGGGGAGACCCGTTTATATTGAAAGGCTTG
|| ||||| |||| | | | ||| ||||| || | | || || ||| ||| ||| || | || | | ||||| || || |||| |||||| ||||||||| |||||||||||||||| ||||||||||||||||||||||| |||||||| |||||||||||||||||||
gttagtgttcttgcttgtgcc--------tataaaacaatttggattttgt-----ttggctataaataatg-cctgtaactacatt----tctctgtagGATTTTGATTACAATGAGTTAGACGCTGTTCTGCAATATTATCCTCACGGTTATCATGGAGTTGACAAAGACGGGAGACCTGTTTATATTGAAAGGCTTG
upper sequence: GRMZM2G171354_T03 (Zea mays), 3'ss of exon 4
lower sequence: AT1G75370.1 (Arabidopsis thaliana), 3'ss of exon 3
gtcagtgtctgagctttagtcagacattttttaagtttgtttggcttatatggctcctgtcttaaaacaataatctgaaa-tcattttgtgtttttcatagGACTTCGAATACACTGAGTTGGACGCTGTTTTGCAATATTATCCTCATGGTTATCATGGAGTTGACAAAGAGGGGAGACCCGTTTATATTGAAAGGCTTG
| | | | | ||||| || | | | || | || | | | || | | || ||| | ||||| || |||||| || |||| ||||| || | ||| || |||| || ||||||||||||||||| ||||| ||||| || || || ||||| |||||||| | |
--------------gtgaattacatgtttttaaaaaaaatcttaat-atgttacttttaatctcatgtgatggttttaatctcaatatgtgtgtta-atagGATTTTGAATTTGAAGAGTTTGATGAAGTTCTGAAATACTACCCTCATGGTTATCATGGTGTTGATAAAGAAGGAAGGCCTGTTTACATTGAAAGATTAG
upper sequence: GRMZM2G171354_T03 (Zea mays), 3'ss of exon 4
lower sequence: Vv18s0001g12950.t01 (Vitis vinifera), 3'ss of exon 3
-----gtcagtgtctgagctttagtcagac---attttttaagtttgtttggcttatatggctcct-----------gtcttaaaacaataatctgaa-atcattttgtgtttttcatagGACTTCGAATACACTGAGTTGGACGCTGTTTTGCAATATTATCCTCATGGTTATCATGGAGTTGACAAAGAGGGGAGACCCGTTTATATTGAAAGGCTTG
||| | | | | ||| ||||| | | | | | | ||| | || || | |||| | ||| | |||| ||||| || |||| || || | || |||||| ||| || | | || |||||||| |||||||| || || || || |||||||||||||||||||||||||| ||||
gtaatctcaaatttcatcccatgattagattctattttctgaagcaatgttccattactggtttctcagatctattggtttgttaacattgttctaattgagatttcatgtttctcccagGATTTTGAGTTCAAAGAGTTGAACGAAGTACTCAAGTACTATCCTCAGGGTTATCACGGTGTGGATAAGGAGGGGAGACCCGTTTATATTGAAAGACTTG
upper sequence: GRMZM2G171354_T03 (Zea mays), 3'ss of exon 4
lower sequence: PP1S169_81V6.1 (Physcomitrella patens), 3'ss of exon 3
gtcagtgtctgagctttagtcagacattttttaag---tttgtttggcttatatggctcc-tgtcttaaaacaataatctgaaatcattttgtgtttttcatagGACTTCGAATACACTGAGTTGGACGCTGTTTTGCAATATTATCCTCATGGTTATCATGGAGTTGACAAAGAGGGGAGACCCGTTTATATTGAAAGGCTTG
| || | | || | |||| || || || | || ||| ||| | | ||| | | || || || | | ||| ||||||||| | ||||| | ||| || | | || |||||||| || ||||||||||| || ||||| || ||||| || |||||||||||| |||
-ttggttttagga---tactggaacatgcttcgagatattggggtgctttacatgcccacatgtacaacggttctcattgatgatatttgtttcgtttcttcagGACTTCGTTTTTACTGAAATTGACAAAGTGAGGAATTACTATCCTCAAGGGTATCATGGAGTGGATAAAGAAGGCAGACCTGTGTATATTGAAAGGATTGMapped 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|13178166|gb|BG349424.1|BG349424EST: GCTTCATTGGCGGAGGGAGTATGGCACTGATACGATTTTGGAG GACTTCGAATACACTGAGTTGGACGCTG-TTTGCAATATTATCCTCATGGT
genomic: GCTTCATTGGCGGAGGGAGTATGGCACTGATACGATTTTGGAGgtcagtgtct ... tttttcatagGACTTCGAATACACTGAGTTGGACGCTGTTTTGCAATATTATCCTCATGGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttatatggctcctgtcttaaaacaataatctgaaatcattttgtgtttttcatagGACTTCGAATACACTGAGTTGGACGCTGTTTTGCAATATTATCCTCATGGTTATCATGGAGTTGACAAAGAGGGGAGACCCGTTTATATTGAAAGGCTTG
tgtttttc CT-rich tract
tcttaaaacaataat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcagtgtctgagctttagtcagacattttttaagtttgtttggcttatatggctcctgtcttaaaacaataatctgaaatcattttgtgtttttcatagGACTTCGAATACACTGAGTTGGACGCTGTTTTGCAATATTATCCTCATGGTTATCATGGAGTTGACAAAGAGGGGAGACCCGTTTATATTGAAAGGCTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG