Sequence
atgc intronic sequence ATGC exonic sequenceCCCAATATATGGTGGTATGCAGGACTGGAACTATATACATGGAGGCTGCTTTGAGTTAACTCTGGAGATTAGTGACACAAAGTGGCCAAAAGCAGATGAGgtacctttgcatcgagttaggttccacttctactgttgcagacccagaccattttataattattcttctgtaatgttgtttatcctaacattttgctacag
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G106683_T02 (Zea mays), 5'ss of exon 11
lower sequence: LOC_Os06g05240.1 (Oryza sativa), 5'ss of exon 11
CCCAATATATGGTGGTATGCAGGACTGGAACTATATACATGGAGGCTGCTTTGAGTTAACTCTGGAGATTAGTGACACAAAGTGGCCAAAAGCAGATGAGgtacctttgcatcgagttaggttccact-tctactgttgcagacccagaccattttataattattcttctgtaatgttgtttatcctaacattttgctacag
||||| |||||||| ||||| ||||||||||||||||||||||| |||||||||||||| ||||| ||||||||| ||| |||||||| |||| ||||||| ||| | || | | ||| | | | ||||| | || ||||| | | | ||| ||| ||| | | || ||| | ||| ||
TCCAATCTATGGTGGGATGCAAGACTGGAACTATATACATGGAGGTTGCTTTGAGTTAACCCTGGAAATTAGTGACGTAAAATGGCCAAAGGCAGCTGAGgtatttttctttttttttgcatctagttatctgcctatcaatttccagataacttgataatcactttgttgt---gttatttcttccaa-attcttctatag
upper sequence: GRMZM2G106683_T02 (Zea mays), 5'ss of exon 11
lower sequence: GLYMA20G31000.2 (Glycine max), 5'ss of exon 4
CCCAATATATGGTGGTATGCAGGACTGGAACTATATACATGGAGGCTGCTTTGAGTTAACTCTGGAGATTAGTGACACAAAGTGGCCAAAAGCAGATGAGgt--acctttgcatcgagttaggttccacttctactgttgcagacccagaccattttataattattcttctgtaatgttgtttatcctaacattttgctacag
||| ||||||| || ||||| || |||||||||||||||| ||||| |||||||| || ||||| ||| |||| | || ||||| | || | |||||| | || || | | | | || || || | | |||| | | | | ||| | | || | |
CCCTCTATATGGGGGAATGCAAGATTGGAACTATATACATGCTGGCTGTTTTGAGTTGACCCTGGAAATTTGTGATAATAAATGGCCCAGTGCTGCTGAGgttagttctagcttctaaactgag-cagtctttaaaattacaagtatat-ctggaatatagcaaaataattaggacaatttttttttttttgaacggccaaa-
upper sequence: GRMZM2G106683_T02 (Zea mays), 5'ss of exon 11
lower sequence: GLYMA10G36590.1 (Glycine max), 5'ss of exon 11
CCCAATATATGGTGGTATGCAGGACTGGAACTATATACATGGAGGCTGCTTTGAGTTAACTCTGGAGATTAGTGACACAAAGTGGCCAAAAGCAGATGAGgt--------acctttgcatcgagttaggttccacttctactgttgcagacccagaccattttataattattcttctgtaatgttgtt-tatcctaacattttgctacag
||| ||||||| || ||||| || |||||||||||||||| ||||| |||||||| || ||||| |||||||| | || ||||| || || | |||||| | | | | |||| || | | | ||| | | | | || | | ||| ||| | | | |||| || ||||
CCCTCTATATGGGGGAATGCAAGATTGGAACTATATACATGCTGGCTGTTTTGAGTTGACCCTGGAAATTAGTGATAATAAATGGCCTAATGCTGCTGAGgttagttctagcttctaaaccgagc-agtctttaaatttacaa--gtatatctggaataaagcaaaataattagaacaaattacactcacatcccaa-gtttta------
upper sequence: GRMZM2G106683_T02 (Zea mays), 5'ss of exon 11
lower sequence: Vv18s0157g00050.t01 (Vitis vinifera), 5'ss of exon 11
CCCAATATATGGTGGTATGCAGGACTGGAACTATATACATGGAGGCTGCTTTGAGTTAACTCTGGAGATTAGTGACACAAAGTGGCCAAAAGCAGATGAGgt---acct---ttgcatcgagttaggttccacttctactgttgcag-acccagaccattttataattattcttctgtaatgttgtttatcctaacattttgctacag
||| ||||||||||| ||||| || ||||||||||||||||| ||||| ||||| || || |||||||| ||||||| |||||||| || | |||||| | || ||| | | || | ||| | | | | | ||||| | | | | || || | || | || | |||| |
CCCCATATATGGTGGCATGCAAGATTGGAACTATATACATGGTGGCTGTTTTGAATTGACACTGGAGATCAGTGACAACAAGTGGCCTAACACTATTGAGgtttgatctcagttgagttgtctttgcttcaatactcagtactattccatgtggaccaagacttgaatggtattgtgaattggttatttcctaaacaatc--------Mapped 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|5081117|gb|AI738163.1|AI738163EST: CAAAAGCAGATGAG CTTCCTATCATCTGGG-ACACAATAGGATGAGTATGCTCAATCTTCTAGCA
genomic: CAAAAGCAGATGAGgtacctttgc ... tttgctacagCTTCCTATCATCTGGGAACACAATAGGATGAGTATGCTCAATCTTCTAGCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CCCAATATATGGTGGTATGCAGGACTGGAACTATATACATGGAGGCTGCTTTGAGTTAACTCTGGAGATTAGTGACACAAAGTGGCCAAAAGCAGATGAGgtacctttgcatcgagttaggttccacttctactgttgcagacccagaccattttataattattcttctgtaatgttgtttatcctaacattttgctacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG