Sequence
atgc intronic sequence ATGC exonic sequencegtacaatttggatttaactttgtggctttgttcctttaattccttacagctgtaatagttttctattgatttcggtttcagCCATGATTCAGCAGCCTCGTATTCCTTCCTCTGGGTTGATGCCTGCAAGTGATGTTCTTATTCGTGCAAAGGAG
Basic information
species | Glycine max |
transcript | GLYMA03G39570.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G39570.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G030072_T03 (Zea mays), 3'ss of exon 3
---gtacaatttggatttaactttgtggctttgttccttt---aattccttacagctg-taatagttttctattgatttcggtt---------tcagCCATGATTCAGCAGCCTCGTATTCCTTCCTCTGGGTTGATGCCTGCAAGTGATGTTCTTATTCGTGCAAAGGAG
||| | | || | || || |||| || | || || || | || ||| || ||||| || | ||||| ||||||||||| || ||||||||||| | |||| |||||| ||| |||||| |||||||||||||||||
gtagtaacgtgctaacttccgtacctgttttctttcccacgggaaatactcacttttgctcatcatttcctgctgattctggatcatactatgtcagCTATGATTCAGCAACCACGTATTCCTTCTTATGGGATGATGCAAGCATCAGATGTTGTTATTCGTGCAAAGGAG
upper sequence: GLYMA03G39570.1 (Glycine max), 3'ss of exon 5
lower sequence: AT1G09130.3 (Arabidopsis thaliana), 3'ss of exon 5
gtaca-atttggatttaactttgtggctttgttcctttaattccttacagctgtaatagtt--ttctattgatt---tcggtttcagCCATGATTCAGCAGCCTCGTATTCCTTCCTCTGGGTTGATGCCTGCAAGTGATGTTCTTATTCGTGCAAAGGAG
||| | | || || | | | || || | | | | | | || | | | |||||| | || |||| ||||||||||| || ||| | ||||| ||||||||||||||||| |||||||| || ||||| || || |||
gtatagacttcgactgcattctggccgcttctatggctcaccattgataatcagaacctctcatacgtttgattcattatgtcacagCGATGATTCAGCAACCACGTGTACCTTCTTCTGGGTTGATGCCTGCCAGTGATGTCCTGATTCGGGCCAAAGAG
upper sequence: GLYMA03G39570.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv14s0060g02160.t01 (Vitis vinifera), 3'ss of exon 5
-------------------gtacaatttggatttaactttgtggctt---tgttccttt-aattccttacagctgtaatagttttctattgatttcggtttcagCCATGATTCAGCAGCCTCGTATTCCTTCCTCTGGGTTGATGCCTGCAAGTGATGTTCTTATTCGTGCAAAGGAG
| ||| || || ||| || || || ||||| || | | | | || ||| |||| ||| ||||||||||||||||| || |||||| |||| || ||||| || ||||| || |||||||| |||||||||||||| |||
gtttgtttccatttgacccttttaatgtgatgttgggtttttgatttatatgcaccttttgatatccaatgtcccttcaagggttcacttgaattctgtttcagCCATGATTCAACAACCTCGTGTTCCATCATCTGGATTAATGCCAGCTAGTGATGTGCTTATTCGTGCAAAAGAGMapped 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|151402798|gb|EV272611.1|EV272611EST: ACTTTCAGCAGGGACTCCTGGTAAACGCTTTATGATGCCACATGCTAAAG CCATGATTCAGCAGCCTCGTATTCCTTCCTCTGGGTTGATGCCTGCAAGTG
genomic: ACTTTCAGCAGGGACTCCTGGTAAACGCTTTATGATGCCACATGCTAAAGgtacaatttg ... tcggtttcagCCATGATTCAGCAGCCTCGTATTCCTTCCTCTGGGTTGATGCCTGCAAGTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttgttcctttaattccttacagctgtaatagttttctattgatttcggtttcagCCATGATTCAGCAGCCTCGTATTCCTTCCTCTGGGTTGATGCCTGCAAGTGATGTTCTTATTCGTGCAAAGGAG
taatagttttctatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacaatttggatttaactttgtggctttgttcctttaattccttacagctgtaatagttttctattgatttcggtttcagCCATGATTCAGCAGCCTCGTATTCCTTCCTCTGGGTTGATGCCTGCAAGTGATGTTCTTATTCGTGCAAAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG