Sequence
atgc intronic sequence ATGC exonic sequencegtctggtttagtttagtggtttccaatgccatattaaatggattaactgttgctttaggccaaaataattttcttgatgtcaacatgtataatagattggtagttgacattttggttgtttgtgcagAATGAAACACTAATTGCAATTAAAGCACCTCATGGTACTACTCTTGAAGTACCAGATCCTGATGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G041701_T02 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os02g33430.2 (Oryza sativa), 3'ss of exon 8
gtctggtttagtttagtggtttccaatgccatattaaatggattaac--tgttgctttaggccaaaataattttcttgatgtcaacatgtataatagattggtagttgacattttggttgtttgtgcagAATGAAACACTAATTGCAATTAAAGCACCTCATGGTACTACTCTTGAAGTACCAGATCCTGATGAG
|||| | || | | ||| ||| |||| | | || | | || | ||||| |||||||| |||| ||| | ||||| | || ||||||||||||||||||||||||| ||||| |||||||| ||||| |||||||| ||||||||||| |||
------------------gttttctattctac-ttacatgccataacaaggccaccttgttgtagatta--tcatttgattaacacatgtattatag----gtaac--atatttttttcattc-tgcagAATGAAACACTAATTGCAATAAAAGCTCCTCATGGCACTACACTTGAAGTCCCAGATCCTGACGAG
upper sequence: GRMZM2G041701_T02 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA10G09410.1 (Glycine max), 3'ss of exon 9
-----------------gtctggtttagtttagtggtttccaatgcca-tattaaatggattaactgttgct-ttaggccaaaataattttcttgatgtcaacatgtataatagattggtagttgacattttggttgtttgtgcagAATGAAACACTAATTGCAATTAAAGCACCTCATGGTACTACTCTTGAAGTACCAGATCCTGATGAG
| | ||| || | || | ||| | | | | | | ||| | | || | || || | | | || | | || | | | || || | |||||||||||| ||||| ||||||||||| || ||||| || || || ||||| || |||||||| ||
gtcattttttattgcattgcactcccaccttatcacttgttattgtaaacattgattttgctgtgttctcttgttaattctgattattgttattattagtattaagttttttgtttttattaatactagttcatttctgcaagcagAATGAAACTCTAATAGCAATTAAAGCTCCGCATGGAACCACCCTGGAAGTCCCCGATCCTGAGGAA
upper sequence: GRMZM2G041701_T02 (Zea mays), 3'ss of exon 9
lower sequence: Vv08s0007g02510.t01 (Vitis vinifera), 3'ss of exon 9
gtctggtttagtttagtggtttccaatgccatattaaatggattaactgttgctttaggccaaaataattttcttgatgtcaacatgtataatagattggtagttgacattttggttgtttgt-----gcagAATGAAACACTAATTGCAATTAAAGCACCTCATGGTACTACTCTTGAAGTACCAGATCCTGATGAG
|| | | | | ||| | | || | | || ||| ||| ||| |||| | ||| | || | || ||| ||| || | | ||| | |||| ||||||||| || || || ||||||||||| || ||||| || ||||| ||||| |||||||||||||||
gttagttatgttgtagcgataccctttttctag--ggctgctgtaattgtctcttatcttcaaagc---tcacttccccctgatatct-tagctaattagtaattcaaaattttatgatttgcttctagcagAATGAGACCCTTATAGCAATTAAAGCTCCACATGGGACCACTCTGGAAGTTCCAGATCCTGATGAGMapped 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|211090511|gb|FK961028.1|FK961028EST: GTGGCTCTATGTGACTGAAGACGATATCAAGGGATTACCCAGCTTTCAG AATGAAACACTAATTGCAATTAAAGCACCTCATGGTACTACTCTTGAAGTA
genomic: GTGGCTCTATGTGACTGAAGACGATATCAAGGGATTACCCAGCTTTCAGgtctggttta ... gtttgtgcagAATGAAACACTAATTGCAATTAAAGCACCTCATGGTACTACTCTTGAAGTA
EST:
gi|211090513|gb|FK961030.1|FK961030EST: GTGGCTCTATGTGACTGAAGACGATATCAAGGGATTACCCAGCTTTCAG AATGAAACACTAATTGCAATTAAAGCACCTCATGGTACTACTCTTGAAGTT
genomic: GTGGCTCTATGTGACTGAAGACGATATCAAGGGATTACCCAGCTTTCAGgtctggttta ... gtttgtgcagAATGAAACACTAATTGCAATTAAAGCACCTCATGGTACTACTCTTGAAGTA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttgatgtcaacatgtataatagattggtagttgacattttggttgtttgtgcagAATGAAACACTAATTGCAATTAAAGCACCTCATGGTACTACTCTTGAAGTACCAGATCCTGATGAG
agttgac putative branch site (score: 4)
atgtataatagatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtctggtttagtttagtggtttccaatgccatattaaatggattaactgttgctttaggccaaaataattttcttgatgtcaacatgtataatagattggtagttgacattttggttgtttgtgcagAATGAAACACTAATTGCAATTAAAGCACCTCATGGTACTACTCTTGAAGTACCAGATCCTGATGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG