Sequence
atgc intronic sequence ATGC exonic sequence...agcctattacttaaagttcatcatcatgttaatgctcaaacttgtgctgtagttttgtaaatctctttaatttcatttgttttcttttcaaatctttcagGACATTCAGGTTGCATTGCGTGATGAAATCAAAAGTGCTTGTGAATATCGTCCATTTGAGAAATGTGATTATGGTTCAAGAATAGCCAATGAGATTTGTC
Basic information
species | Glycine max |
transcript | GLYMA03G32550.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G32550.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os02g09600.1 (Oryza sativa), 3'ss of exon 2
agcctattact--taaagttcatcatcatgttaatgctcaaacttgtgctgtagttttgtaaatctctt----taatttcatttgttttcttttcaaatctttcagGACATTCAGGTTGCATTGCGTGATGAAATCAAAAGTGCTTGTGAATATCGTCCATTTGAGAAATGTGATTATGGTTCAAGAATAGCCAATGAGATTTGTC
| | || || | | ||| | || | | || ||| | ||||||||| | ||||||||| | | || ||||| ||||| |||||||||| ||||||||||||||||| |||||||| ||||||||||| ||||| || || |||| || || ||||||||||||
-acatgttcctgctcttctctttcactaactttacatttaagac-acaatgt-gcattgtaaatcatacatggcagactcatttgttattatgtctggag---cagGAAATTCAAACGACATTGCGTGAGGAAATCAAAAGTGCTTGCGAATATCGCCCATTTGAGAAGTGTGACTACAGTGCAAGGATTGCTAATGAGATTTGTT
upper sequence: GLYMA03G32550.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os02g49640.1 (Oryza sativa), 3'ss of exon 3
agcctattacttaaagttcatcatcatgttaatgctcaaacttg-tgctgta-gttttgtaaatctctttaatttcatttgttttcttttcaaatctttcagGACATTCAGGTTGCATTGCGTGATGAAATCAAAAGTGCTTGTGAATATCGTCCATTTGAGAAATGTGATTATGGTTCAAGAATAGCCAATGAGATTTGTC
| || | | || | ||| | | | | || | ||||||||| | ||| || | || | ||||| ||||| |||||||||| |||||||||||||| || |||||||| ||||||||||| | ||| || || |||| || || ||||||||| ||
-gtacatgttcttgtgcctctcttt-cactaacttttatttaagacacaatatgcattgtaaatcatacatggtagattcattgttattatggttggagcagGAAATTCAAACGACATTGCGTGAGGAAATCAAAAGTGCCTGCGAATATCGCCCATTTGAGAAGTCTGACTACAGTGCAAGGATTGCTAATGAGATTAGTT
upper sequence: GLYMA03G32550.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G071626_T01 (Zea mays), 3'ss of exon 2
---agcctatta-cttaaagttcatcatcatgttaatgctcaaacttgtgctgtagttttgtaaatctctttaatttcatttgttttcttttcaaatctttcagGACATTCAGGTTGCATTGCGTGATGAAATCAAAAGTGCTTGTGAATATCGTCCATTTGAGAAATGTGATTATGGTTCAAGAATAGCCAATGAGATTTGTC
|| | || | || | || || | || | || || | | || || || | | | | || || | | |||| ||||| | |||||||| ||||||||||||||||||||||||||||||||||| || |||||||| || |||| || || |||||||| ||
atatatgcatcagctctcaattggttattatttgaagcagtatacatgccccaaatcattcatgataactcactgcttaactatgtttttgttggagt----agGAAATTCAAACGACGTTGCGTGAGGAAATCAAAAGTGCTTGTGAATATCGTCCATTTGAAAAGTGTGATTACAGTGCAAGGATTGCTAATGAGATATGCT
upper sequence: GLYMA03G32550.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G145996_T01 (Zea mays), 3'ss of exon 2
----agcctattacttaaagttcatcatcatgttaatgctcaaacttgtgctgtagttttgtaaatctctttaatttcatttgttttcttttcaaatctttcagGACATTCAGGTTGCATTGCGTGATGAAATCAAAAGTGCTTGTGAATATCGTCCATTTGAGAAATGTGATTATGGTTCAAGAATAGCCAATGAGATTTGTC
|| | || || || | | || |||| | || ||| || || | | | | | | | || || ||| | | |||| ||||| || ||||||| ||||||||||||||||| ||||| ||||||||||| || |||||||| | |||| || || |||||||| |||
ataatgcatcttctcataaatttgtttttat-ttaacaca-gaatacgtggcacagattgttcatggtaactcactgc--ttaattatgttttgattggagtagGAAATTCAAACGACACTGCGTGAGGAAATCAAAAGTGCTTGCGAATACCGTCCATTTGAAAAGTGTGATTACAGCGCAAGGATTGCTAATGAGATATGTT
upper sequence: GLYMA03G32550.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv17s0000g04620.t01 (Vitis vinifera), 3'ss of exon 2
agcctattacttaaagttcatcatcatgttaatgctcaaacttgtgctgtagttttgtaaat--ctctttaatttcat-ttgttttcttttcaaatctttcagGACATTCAGGTTGCATTGCGTGATGAAATCAAAAGTGCTTGTGAATATCGTCCATTTGAGAAATGTGATTATGGTTCAAGAATAGCCAATGAGATTTGTC
| ||| ||| || | |||| | | ||| || | || | || | | || | || || ||| | ||| ||||||| ||| | | ||||||| || | | |||| ||||||||||||||||| ||||| || |||||||||||||| || ||||| |||||||||| | |||||||| |||
aagttatcactctaa-ctaatcaatttttgaat-ctgatgctggatttgaattgtttgagatggctattttaccacatattgttttgcttttgtaaaact-agGACATCCAAATGACCCTGCGGGATGAAATCAAAAGTGCATGTGAGTACCGTCCATTTGAGAAGTGCGATTACATTTCAAGAATATCTAATGAGATCTGTTMapped 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|192320349|gb|FK013439.1|FK013439EST: GCAATTAATCAAG GACATTCAGGTTGCATTGCGTGATGAAATCAAAAGTGCTTGTGAATATCGT
genomic: GCAATTAATCAAGgtccttgtct ... aatctttcagGACATTCAGGTTGCATTGCGTGATGAAATCAAAAGTGCTTGTGAATATCGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gctgtagttttgtaaatctctttaatttcatttgttttcttttcaaatctttcagGACATTCAGGTTGCATTGCGTGATGAAATCAAAAGTGCTTGTGAATATCGTCCATTTGAGAAATGTGATTATGGTTCAAGAATAGCCAATGAGATTTGTC
ctttaat putative branch site (score: 4)
tctttc putative PPT
tttaatttcatttgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agcctattacttaaagttcatcatcatgttaatgctcaaacttgtgctgtagttttgtaaatctctttaatttcatttgttttcttttcaaatctttcagGACATTCAGGTTGCATTGCGTGATGAAATCAAAAGTGCTTGTGAATATCGTCCATTTGAGAAATGTGATTATGGTTCAAGAATAGCCAATGAGATTTGTC
- - - - - - - - - - - -tcatgtt
- - - - - - - - - - - - - - - - - ctcaaac
- - - - - - - - - - - - - - - - - - - - - - tgctgta