Sequence
atgc intronic sequence ATGC exonic sequencegtatttttgttttacacctattgatttgtgtttttctgtgttttaagcatgagtgagtataaaaaatgtggccattggttttacctgtatttccatttacctctcattagATATAGGGAGGAGAGAAGGGTTAGAAAATGGAGGAAGATGATTGGGGTTGGTGGCAGTGACTGGAAGCATTATCTAAGGAGAAAACCTCATGTTGTGAAA
Basic information
species | Glycine max |
transcript | GLYMA19G05360.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G05360.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os08g31840.2 (Oryza sativa), 3'ss of exon 2
gtatttttgttttacacctattgatttgtgtttttctgtgttttaagca-tgagtgagtataaaaaatgtggccattggttttacctgtatttccatttacctctcattagATATAGGGAGGAGAGAAGGGTTAGAAAATGGAGGAAGATGATTGGGGTTGGTGGCAGTGACTGGAAGCATTATCTAAGGAGAAAACCTCATGTTGTGAAA------
| |||||| | || ||| || | || ||| | | | || | | | | | | | || | | || | | || | | || ||||||| | || ||| | | |||||||||||||||||| || |||||||| ||||||||||| |||||| | || ||||| |||||||| || |||
--acttttgtaatgcatcta-------gtttacttttgtaaagtgggtactggcttactgtgcattactt---cactaacctcacagctg-----acatatttttgggtaaccatagGGACGGAAGGAGGATAAAAAAATGGAGGAAGATGATAGGTGTTGGTGGTAGTGACTGGAAACATTATGTTAGAAGAAACCCTCATGTGGTTAAAAGAAGA
upper sequence: GLYMA19G05360.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G047223_T03 (Zea mays), 3'ss of exon 2
gtatttttgttttacacctattgatttgtgtttttctgtgttttaagcatgagtgagtataaaaaatgtggccattggttttacctgtatttccatttacctctcat-tagATATAGGGAGGAGAGAAGGGTTAGAAAATGGAGGAAGATGATTGGGGTTGGTGGCAGTGACTGGAAGCATTATCTAAGGAGAAAACCTCATGTTGTGAAA------
|| || || ||| || || || || | ||||| | | | | || ||||| ||| |||| | | || | | ||||||||||| |||||| | |||||||||||||||||||| || |||||||| | |||||||||||||||| | || || || |||||||| || |||
---------acttgtgtaaatcagttattgtcttacttcaccttcc-tatttctctaaataaactaccttacaagtgctttta-------ttctatttcttttttatgttgctatagGGAGGAAAGAAGGATAAGAAAATGGAGGAAGATGATAGGTGTTGGTGGTAATGACTGGAAGCATTATGTTAGAAGGAACCCTCATGTGGTTAAAAGGCGA
upper sequence: GLYMA19G05360.1 (Glycine max), 3'ss of exon 2
lower sequence: AT5G15930.1 (Arabidopsis thaliana), 3'ss of exon 2
--gtatttttgttttacacctattgatttgtgtttttctgtgttttaagcatgagtgagtataaaaaatgtggccattggttttacctgtatttccatttacctctcattagATATAGGGAGGAGAGAAGGGTTAGAAAATGGAGGAAGATGATTGGGGTTGGTGGCAGTGACTGGAAGCATTATCTAAGGAGAAAACCTCATGTTGTGAAA------
| | ||| | | |||| ||||| ||| ||| | || || || |||||| |||| | ||| ||| | | | | ||| | |||||||||| || || | ||||||||||||||||||||| ||| || ||||| ||||||||||| | |||||||||||||||||||| ||
gtatgtcaatgtgaaaaagtgattgttttgtcctttgttgt-tgttgaggat-----agtata----ttgtgctttgttatttaaccatggatgctaaattccttt----------agGGAGGAGAAGAGAGTGACAAAATGGAGGAAGATGATTGGAACTGGGGGTAGTGATTGGAAGCATTACGTTAGGAGAAAACCTCATGTTGTCAAGAGGCGG
upper sequence: GLYMA19G05360.1 (Glycine max), 3'ss of exon 2
lower sequence: AT3G02460.1 (Arabidopsis thaliana), 3'ss of exon 2
gtatttttgttttacacctattgatttgtgtttttctgtgttttaagcatgagtgagtataaaa-aatgtggccattggttttacctgtatttccatttacctctcattagATATAGGGAGGAGAGAAGGGTTAGAAAATGGAGGAAGATGATTGGGGTTGGTGGCAGTGACTGGAAGCATTATCTAAGGAGAAAACCTCATGTTGTGAAA------
| ||| | | || | | | ||||| ||| || |||| | | | ||| | || ||||| |||||||||| ||| ||||||||||||||||||||||||||||| || ||||| |||||||||||| | |||||||||||| ||||||| | |
---------------------------------gtatgtcctgagggagcgaataattttaaaagaatatg---attgagagagtgagagtgtgtttttgttgttggctatctatagAGAGGAGAGAAAGGTGAGAAAATGGAGGAAGATGATTGGGGTTGGAGGGAGTGATTGGAAGCATTATGTTAGGAGAAAACCTAATGTTGTCAGAAGGCGT
upper sequence: GLYMA19G05360.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv14s0083g00540.t01 (Vitis vinifera), 3'ss of exon 2
gtatttttgttttacacctattgatttgtgtttttctgtgttttaagcatgagtgagtataaaaaatgtggccattggttttacctgtatttccatttacctctcattagATATAGGGAGGAGAGAAGGGTTAGAAAATGGAGGAAGATGATTGGGGTTGGTGGCAGTGACTGGAAGCATTATCTAAGGAGAAAACCTCATGTTGTGAAA------
| || | | || ||||||| | | |||||| | || | || | || |||||| | | ||| | | |||||||| ||| ||||||||||||||||||| |||||||| |||| || ||||| ||||||||||| | ||||| |||||| |||| || |||
-ttttgcaaaatggagtttttttggctgtgtttgtgtatgtttttctcttg--------ctataagcattaccggatattttactacaagacataaggtccttt-------ttcagGGAGGAAAGACGGGTTAGAAAATGGAGGAAAATGATTGGAATTGGAGGGAGTGATTGGAAGCATTACGTTAGGAGGAAACCTAATGTGGTTAAAAGACGTMapped 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|151405260|gb|EV275074.1|EV275074EST: AATACTTCTGAAGGCTTAGTCAAGAATAGATCAGCCTACGAGTATGAGAG ATATAGGGAGGAGAGAAGGGTTAGAAAATGGAGGAAGATGATTGGGGTTGG
genomic: AATACTTCTGAAGGCTTAGTCAAGAATAGATCAGCCTACGAGTATGAGAGgtatttttgt ... ctctcattagATATAGGGAGGAGAGAAGGGTTAGAAAATGGAGGAAGATGATTGGGGTTGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agtataaaaaatgtggccattggttttacctgtatttccatttacctctcattagATATAGGGAGGAGAGAAGGGTTAGAAAATGGAGGAAGATGATTGGGGTTGGTGGCAGTGACTGGAAGCATTATCTAAGGAGAAAACCTCATGTTGTGAAA
tttccatttacctctc CT-rich tract
aaaaaatgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatttttgttttacacctattgatttgtgtttttctgtgttttaagcatgagtgagtataaaaaatgtggccattggttttacctgtatttccatttacctctcattagATATAGGGAGGAGAGAAGGGTTAGAAAATGGAGGAAGATGATTGGGGTTGGTGGCAGTGACTGGAAGCATTATCTAAGGAGAAAACCTCATGTTGTGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA