Sequence
atgc intronic sequence ATGC exonic sequencegtatgtactacatactgacccctgtgtttgttctgcattgtggatgctcgaaattaactgggtgttctacatgtctgtagGCTGGATAAGATTAGGTTCCTTTCCCTTACTGATAAGGAAGTTCTGGGTGAAGGGGACACTGCAAAGCTTGAGATTCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G022909_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA17G37820.1 (Glycine max), 3'ss of exon 3
----------------------------------------------------------------gtatgtactacatactgacccctgtg---tttgttctgcattgtg--gatgc-tcgaaattaactgggtgttctacatgt-ctgtagGCT--GGATAAGATTAGGTTCCTTTCCCTTACTGATAAGGAAGTTCTGGGTGAAGGGGACACTGCAAAGCTTGAGATTCAG
|| | | | | | | | | ||| || | | |||| | |||| | | | || | |||||| ||| |||||||||||||||||||| || |||||||| ||| |||| ||||| || | | |||||||| |||||
tgtaagcgttttttttttattgttatttatttgagttaaaacctacatctattcatatgcttgtttacattttgaaaatccatgcatttaaattttcatccaaactccaacgatgtgttattgttaatgacaaatgatgcttgcattctaGGCTTTGGACAAGATTAGGTTCCTTTCCCTCACGGATAAGGACGTTTTGGGAGAAGGTGATAACACCAAGCTTGATATTCA-
upper sequence: GRMZM2G022909_T01 (Zea mays), 3'ss of exon 4
lower sequence: AT4G24190.2 (Arabidopsis thaliana), 3'ss of exon 3
------------gtatgtactacat-actgacccctgtgtttgttctgcattgtggatgctcgaaattaactgggtgttctacatgtctgtagGC--TGGATAAGATTAGGTTCCTTTCCCTTACTGATAAGGAAGTTCTGGGTGAAGGGGACACTGCAAAGCTTGAGATTCAG
|| | | | | | ||| | | | | | | | | || ||| || ||| | | | |||| |||| || |||||||||||| | || ||||| || || ||| |||||||||| |||||||| ||||||||||| |||
gtaagcagcttcgtgtacattgttttagtgagtttttgggatacctcgttaaataggggaactaa--taagtgtctgtgttggtgattttcagGCCTTGGACAAAATTAGGTTCCTTGCACTCACTGACAAAGACGTTTTGGGTGAAGGTGACACTGCTAAGCTTGAGATCCAG
upper sequence: GRMZM2G022909_T01 (Zea mays), 3'ss of exon 4
lower sequence: Vv18s0001g14500.t01 (Vitis vinifera), 3'ss of exon 3
gtatgtactacat-actgacccctgtgtttgttctgcattgtggatgctcgaaattaactgggtgttctacatgtctgtagGC--TGGATAAGATTAGGTTCCTTTCCCTTACTGATAAGGAAGTTCTGGGTGAAGGGGACACTGCAAAGCTTGAGATTCAG
||| ||| || | | || | |||| || || | | | | | | ||| |||| | || | |||| ||||||||||||||||||||||||| || |||||||| || | |||||||| || |||||||||||||| || |||
gtaagtattattttgtttgtttctaggaactttct---ttctgaa--gttgttacttaatggtaattctgcttgatttcagGCACTGGATAAGATTAGGTTCCTTTCCCTCACAGATAAGGAGATTTTAGGTGAAGGTGATACTGCAAAGCTTGATATCCAGMapped 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|83278406|gb|DV942414.1|DV942414EST: ACAGCAACAAGGATATCTTCCTGAGGGAGCTCATATCTAATGCCTCTGAT GCTGGATAAGATTAGGTTCCTTTCCCTTACTGATAAGGAAGTTCTGGGTGA
genomic: ACAGCAACAAGGATATCTTCCTGAGGGAGCTCATATCTAATGCCTCTGATgtatgtacta ... atgtctgtagGCTGGATAAGATTAGGTTCCTTTCCCTTACTGATAAGGAAGTTCTGGGTGA
EST:
gi|10697593|gb|BE997317.1|BE997317EST: CAGCAACAAGGATATCTTCCTGAGGGAGACACATATCTAATGCCTCTGAT GCTGGATAAGATTAGGTTCCTTTCCCTTACTGATAAGGAAGTTCTGGGTGA
genomic: CAGCAACAAGGATATCTTCCTGAGGGAG-CTCATATCTAATGCCTCTGATgtatgtacta ... atgtctgtagGCTGGATAAGATTAGGTTCCTTTCCCTTACTGATAAGGAAGTTCTGGGTGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtttgttctgcattgtggatgctcgaaattaactgggtgttctacatgtctgtagGCTGGATAAGATTAGGTTCCTTTCCCTTACTGATAAGGAAGTTCTGGGTGAAGGGGACACTGCAAAGCTTGAGATTCAG
aattaac putative branch site (score: 2)
aaattaact 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtactacatactgacccctgtgtttgttctgcattgtggatgctcgaaattaactgggtgttctacatgtctgtagGCTGGATAAGATTAGGTTCCTTTCCCTTACTGATAAGGAAGTTCTGGGTGAAGGGGACACTGCAAAGCTTGAGATTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG