Sequence
atgc intronic sequence ATGC exonic sequencegtatgtttttttattccctttctctctacagcttgtgacagacagtcttcttgttaatctatttgtagtatttctttctgaattgagatgtggaatttggattcacaaggaaagagtccttttttttttttgcagATGGGAATCTTCTGTATGTCTCCTGGTTCCGTTATTCCGCTTCATAACCATCCCGGAATGACTGTTTTGAGCAAGCTTCTTTATGGTTCATTACTTGTGA
Basic information
species | Glycine max |
transcript | GLYMA15G08980.4 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G08980.4 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G136250_T01 (Zea mays), 3'ss of exon 4
------------gtatgtttttttattccctttctctctacagcttgtgacagacagtcttcttgttaatctatttgtagtatttctttctgaattgagatgtggaatttggattcacaaggaaagagtccttttttttttttgcagATGGGAATCTTCTGTATGTCTCCTGGTTCCGTTATTCCGCTTCATAACCATCCCGGAATGACTGTTTTGAGCAAGCTTCTTTATGGTTCATTACTTGTGA
| ||| ||||| ||||| | | | ||||| | || ||| | | || ||| | | |||| || || | ||||| || | | | | | | ||||||||||||| || || |||||| | ||| ||| |||||||| |||||||| ||||| |||||||| || | ||||||||||||||||| | | | ||
gtaagatatcttattcatttcattatttaatttctttgtttattttgtg-----cggttttcaggaggacagat--aaagtgggt-tgtctgtggtgctcactgcgttcaggatttacta------aatttatatatgcttttgcagATGGGTATATTTTGTATGCCACCTTCTTCAGTTATTCCACTTCATAATCATCCTGGAATGACAGTACTTAGCAAGCTTCTTTATGGAAGACTGCATGCTG
upper sequence: GLYMA15G08980.4 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G162175_T01 (Zea mays), 3'ss of exon 3
gtatgtttttttattccctttctctctacagcttgtgacagacagtcttcttgttaatctatttgtagtatttctttctgaattgagatgtggaatttggattcacaaggaaagagtccttttttttttttgcagATGGGAATCTTCTGTATGTCTCCTGGTTCCGTTATTCCGCTTCATAACCATCCCGGAATGACTGTTTTGAGCAAGCTTCTTTATGGTTCATTACTTGTGA
||| | | | |||||| | | | | | || || | || | | | | | ||||| || | | | | || |||| | | | || | | ||||||||||||| || || |||||| | ||| ||| ||||| || |||||||| ||||| ||||||||||| | ||||||||||||||||| | | ||
gtaagatctcttattcattcattattttatttctatgtttatttgtgtggttttcaggaggacagataaagtggtttct---ctgtggtattca--ctgcgttcaggatttactaaat-ttatgtgattttgcagATGGGTATATTTTGTATGCCACCTTCTTCAGTTATCCCACTTCATAATCATCCTGGAATGACTGTACTTAGCAAGCTTCTTTATGGACGTCTGCATGCTG
upper sequence: GLYMA15G08980.4 (Glycine max), 3'ss of exon 3
lower sequence: Vv10s0003g01390.t01 (Vitis vinifera), 3'ss of exon 4
gtatgtttttttattccctttctctctacagcttgtgacagacagtcttcttgttaatctatttgtagtatttctttctgaattgagat--gtggaatttggattcacaaggaaagagtccttttttttttttgcagATGGGAATCTTCTGTATGTCTCCTGGTTCCGTTATTCCGCTTCATAACCATCCCGGAATGACTGTTTTGAGCAAGCTTCTTTATGGTTCATTACTTGTGA
| | | || | ||| || | ||| | ||||| || ||| || | || |||| || | || |||| ||||||| ||||| ||||| ||| | ||| || | || || || ||||| ||||| |||||||| || |||||||||||||| |||||| || ||| |||||
-------------------------------ttcgagtcacaattggttcctgcagagtgggttgct-tgattcttcaaaaactgaatctggtttatcatgaattcttggtga-----tttttggattttgctgcagATAGGAATATTCTGCATGCCACCTTCCTCTATCATACCCCTCCATAATCATCCTGGAATGACAGTGTTGAGCAAGCTTCTGTATGGTACACTACATGTGAMapped 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|7028120|gb|AW457903.1|AW457903EST: ATCCACCCTCCATTAAGTACATTCACTTGCATGAATGTGACAAATTCTCT ATGGGAATCTTGTGTATGT
genomic: ATCCACCCTCCATTAAGTACATTCACTTGCATGAATGTGACAAATTCTCTgtatgttttt ... ttttttgcagATGGGAATCTTCTGTATGT
EST:
gi|192324680|gb|FK016841.1|FK016841EST: ATCCACCCTCCATTAAGTACATTCACTTGCATGAATGTGACAAATTCTCT ATGGGAATCTTCTGTATGTCTCCTGGTTCCGTTATTCCGCTTCATAACCAT
genomic: ATCCACCCTCCATTAAGTACATTCACTTGCATGAATGTGACAAATTCTCTgtatgttttt ... ttttttgcagATGGGAATCTTCTGTATGTCTCCTGGTTCCGTTATTCCGCTTCATAACCAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aattgagatgtggaatttggattcacaaggaaagagtccttttttttttttgcagATGGGAATCTTCTGTATGTCTCCTGGTTCCGTTATTCCGCTTCATAACCATCCCGGAATGACTGTTTTGAGCAAGCTTCTTTATGGTTCATTACTTGTGA
tccttttttttttttg CT-rich tract
tcctttttttttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtttttttattccctttctctctacagcttgtgacagacagtcttcttgttaatctatttgtagtatttctttctgaattgagatgtggaatttggattcacaaggaaagagtccttttttttttttgcagATGGGAATCTTCTGTATGTCTCCTGGTTCCGTTATTCCGCTTCATAACCATCCCGGAATGACTGTTTTGAGCAAGCTTCTTTATGGTTCATTACTTGTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT