Sequence
atgc intronic sequence ATGC exonic sequencegtattatttccttgaaattctaacgtagtcaagttcatttattttggtatgaatctactatggttctctctcttacctttcagTTCGGATCAGTATGGGAGTCGCTTTATACAGCAGAAACTAGAAACTGCTTCTACTGAACAGAAGAATATGATTTTTCCTGAGATCCTTCCCCAGGCACGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G123537_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os02g57390.1 (Oryza sativa), 3'ss of exon 4
gtattatttccttgaaat-tctaacgtagtcaagttcatttattttggtatgaatctactatggttctctctcttacctttcagTTCGGATCAGTATGGGAGTCGCTTTATACAGCAGAAACTAGAAACTGCTTCTACTGAACAGAAGAATATGATTTTTCCTGAGATCCTTCCCCAGGCACGT
||| | || | | || || | | ||| ||||| | | || | ||||| || || | || || ||| ||||| |||||||| |||||||||||||| |||||||||||||| |||||| ||||| ||||| | | |||||||| ||||| ||||| || |||||
gtaattttctcatagtatatccatcagagtaaagttgctgttttcagatatgatgct-tgatacacccaaacctcctgttgcagCTCGGACCAGTATGGAAGTCGCTTTATACAACAGAAACTAGAAACGGCTTCTGCTGAAGAGAAGGACACCATTTTTCCAGAGATTCTTCCTCAAGCACGA
upper sequence: GRMZM2G123537_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA10G35290.1 (Glycine max), 3'ss of exon 6
gtattatttccttgaaattctaacgtagtcaagttcatttattttggtatgaatctactatggttctctctcttacctttcagTTCGGATCAGTATGGGAGTCGCTTTATACAGCAGAAACTAGAAACTGCTTCTACTGAACAGAAGAATATGATTTTTCCTGAGATCCTTCCCCAGGCACGT
|||| | |||| | || | || | | ||| | | |||| || | ||| | | | |||| | ||||||||||| || |||||||| ||||||||| ||||||| || ||| ||| |||||| | ||| |||||||||||| |||| || || |||
gtatcgat--cttgcatctccgatgttttttcctagtgatatggctctggggatctgaattgataatctgtgccataatgcagTACTGATCAGTATGGTAGCCGCTTTATTCAGCAGAAATTAGAAACGGCATCTGTAGAAGAGAAGACCAAGATATTTCCTGAGATCATTCCTCATGCTCGT
upper sequence: GRMZM2G123537_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA20G32230.1 (Glycine max), 3'ss of exon 6
gtattatttccttgaaattctaacgtagtcaagttcatttattttggtatgaa--tctactatggttctctctcttacctttcagTTCGGATCAGTATGGGAGTCGCTTTATACAGCAGAAACTAGAAACTGCTTCTACTGAACAGAAGAATATGATTTTTCCTGAGATCCTTCCCCAGGCACGT
|||| | | |||| | || || || | | | | || | | | || | ||| || | ||| | | | |||| | ||||||||||| || |||||||| ||||||||| ||||||| || || ||| |||||| | ||| |||||||||||| |||| || || |||
gtatcaat--cttgcacctccaatgttttt---tctagtgatatggttctggagatctgaattgataatctgtgccataatgcagTACTGATCAGTATGGTAGCCGCTTTATTCAGCAGAAATTAGAAACAGCATCAGTAGAAGAGAAGACCAAGATATTTCCTGAGATCATTCCTCATGCTCGT
upper sequence: GRMZM2G123537_T01 (Zea mays), 3'ss of exon 4
lower sequence: Vv13s0019g04640.t01 (Vitis vinifera), 3'ss of exon 4
gtat---tatttccttgaaattctaacgtagtcaagttcatttattttggtatgaatctactatggttctctctcttaccttt----cagTTCGGATCAGTATGGGAGTCGCTTTATACAGCAGAAACTAGAAACTGCTTCTACTGAACAGAAGAATATGATTTTTCCTGAGATCCTTCCCCAGGCACGT
|||| ||| | || | | ||| || | || | ||| | | || |||| || || |||| | ||||| |||||||| |||||||| |||||||||||||||||||| | || | |||| || ||| || |||||||| |||| || | | |
gtatgcatataatcctgtcttagtgctgtattctacttatgaagcacaagcttgagttctaagagttttaatctcctattcttaatacagTACTGATCAATATGGGAGCCGCTTTATTCAGCAGAAACTAGAAACTGCCACAGTGGATGAAAAGATTAAGATATTCCCTGAGATTATTCCTCATTCTCATMapped 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|60348910|gb|DN215883.1|DN215883EST: ACTAGATCTTTTGAGCTGTTAGATATTGTAGGCCATGTGGTAGAGTTCAG TTCGGATCAGTATGGGAGTCGCTTTATACAGCAGAAACTAGAAACTGCTTC
genomic: ACTAGATCTTTTGAGCTGTTAGATATTGTAGGCCATGTGGTAGAGTTCAGgtattatttc ... tacctttcagTTCGGATCAGTATGGGAGTCGCTTTATACAGCAGAAACTAGAAACTGCTTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcaagttcatttattttggtatgaatctactatggttctctctcttacctttcagTTCGGATCAGTATGGGAGTCGCTTTATACAGCAGAAACTAGAAACTGCTTCTACTGAACAGAAGAATATGATTTTTCCTGAGATCCTTCCCCAGGCACGT
ctcttac putative branch site (score: 3)
tggttctctctcttac CT-rich tract
atttattttggtat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattatttccttgaaattctaacgtagtcaagttcatttattttggtatgaatctactatggttctctctcttacctttcagTTCGGATCAGTATGGGAGTCGCTTTATACAGCAGAAACTAGAAACTGCTTCTACTGAACAGAAGAATATGATTTTTCCTGAGATCCTTCCCCAGGCACGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC