Sequence
atgc intronic sequence ATGC exonic sequencegttcggaatttcgctcttcaaattgttttagggttttggattgtgatgttcgagtttggaattagggttttgaattgttttttgttgttttggcagAATGTGCAGGATTACCAGGGAATCATAGATGCGGCGAAGACGAGTGTGAAGGCGAAGCAGCTCGCCGCGCAGCTGATTCCCAAGTTCTTCAAGTTCTTCC
Basic information
species | Glycine max |
transcript | GLYMA13G24090.2 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G24090.2 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os02g20930.1 (Oryza sativa), 3'ss of exon 1
----------gttcggaatttcgctcttcaaattgttttagggttttggattgtgatgttcgagtttggaatt-----agggttttgaattgttttt----tgttgttttg----gcagAATGTGCAGGATTACCAGGGAATCATAGATGCGGCGAAGACG---AGTGTGAAGGCGAAGCAGCTCGCCGCGCAGCTGATTCCCAAGTTCTTCAAGTTCTTCC
| || | ||| | | | || | | || | | | | | || |||||| | ||| | | || | |||| | | | ||| ||| ||| |||||| || | |||| | || |||||||||||||||||||| |||||||| || ||| |||||| | ||
gtgcgcctccgctcccccctccgc-cgcctgctccattcgccgctacgggccccgccgccgccgcctagggttttgacggggtttcgttttgctcggggggcggccttccgcatcgcagCACGCGGCGGACTACGAGGCGATCATATCGGCCGTGAAGGGGCAGAGCGTGAAGGCGAAGCAGCTCGCGGCGCAGCTCATCCCCCGCTTCTTCCGGAGCT---
upper sequence: GLYMA13G24090.2 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G059039_T01 (Zea mays), 3'ss of exon 1
--gttcggaatttcgctcttcaaattgttttagggttttggattgtgatgttcgagtttggaattagggttttgaattgttttttgtt--gttttggcagAATGTGCAGGATTACCAGGGAATCATAGATGCGGCGAAGA---CGAGTGTGAAGGCGAAGCAGCTCGCCGCGCAGCTGATTCCCAAGTTCTTCAAGTTCTTCC
| |||| | | | | | || || ||| ||| || | ||| | | || || |||| | ||||| ||| | | |||| ||| | ||| ||| ||| || || | |||| |||| ||||| ||||||||||||||||| |||||||| || |||| ||||||| | ||
gtgcctcgaatccctcccgt--agtttgttaagg---ctggtctgcg---ttcaggctagggttttgggtgacgtggagttttcggtttcggaattgcagCATGCGGCGGACTACGAGGCGATTATTGCAGCGGTGAAGGGACAGAGTGCCAAGGCGAAGCAGCTCGCAGCGCAGCTTATCCCCAGGTTCTTCCGGAGCT---
upper sequence: GLYMA13G24090.2 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G014577_T01 (Zea mays), 3'ss of exon 1
gttcggaatttcgctcttc-aaattgttttagggttttggattgtgatgttcgagtttggaattagggttttgaattgttttttgtt--gttttggcagAATGTGCAGGATTACCAGGGAATCATAGATGCGGCGAAGA---CGAGTGTGAAGGCGAAGCAGCTCGCCGCGCAGCTGATTCCCAAGTTCTTCAAGTTCTTCC
| |||||| | | ||| | || || || ||| ||| | | || || | || | ||||| ||| | | |||| || | ||| ||| ||| || || | || | |||| |||||| ||||||||||||||||| |||||||| || || | ||||||| | ||
--gtgcttccccgctctcccagattttgttgaggcc--ggtccgtg---ttcaggctagggttttgagtgacgtggggttttcggtttcggaattgcagCTTGCGGCGGACTACGAGGCGATTATTGCAGCAGTGAAGGGGCAGAGTGTCAAGGCGAAGCAGCTCGCAGCGCAGCTCATCCCGAGGTTCTTCCGGAGCT---
upper sequence: GLYMA13G24090.2 (Glycine max), 3'ss of exon 1
lower sequence: EFJ36702 (Selaginella moellendorffii), 3'ss of exon 1
gttcggaatttcgctcttcaaattgttttagggttttggattgtgatgttcgagtttggaattagggttttgaattgttttttgttgttttggcagAATGTGCAGGATTACCAGGGAATCATAGATGCGGCGAAGACGAGTGTGAAGGCGAAGCAGCTCGCCGCGCAGCTGATTCCCAAGTTCTTCAAGTTCTTCC
| | | || || | | | | | || | | || | | |||||||| || |||| || |||||||| || || ||| | | | |||| ||||||||||||||||||||||||||| | |||||||| ||
-------------------------------------gtgtggcaatttttcgttgttagttca---ctcccaactctggcatgac-tcctagCAGAATGAAAGTGACTACCTCGGTATCATAGAAGCAGCAAAGTCTAAAGGAAAGGTGAAGCAGCTCGCCGCGCAGCTGATTCCTCGCTACTTCAAGTACT---
upper sequence: GLYMA13G24090.2 (Glycine max), 3'ss of exon 1
lower sequence: EFJ27966 (Selaginella moellendorffii), 3'ss of exon 1
gttcggaatttcgctcttcaaattgttttagggttttggattgtgatgttcgagtttggaattagggttttgaattgttttttgttgttttggcagAATGTGCAGGATTACCAGGGAATCATAGATGCGGCGAAGACGAGTGTGAAGGCGAAGCAGCTCGCCGCGCAGCTGATTCCCAAGTTCTTCAAGTTCTTCC
| | | || || | | | | | || | | || | | |||||||| || |||| || |||||||| || || ||| | | | |||| ||||||||||||||||||||||||||| | |||||||| |||||
-------------------------------------gtgtggcaatttttcgttgttagttca---ctcccaactctggcatgac-tcctagcagAATGAAAGTGACTACCTCGGTATCATAGAAGCAGCAAAGTCTAAAGGAAAGGTGAAGCAGCTCGCCGCGCAGCTGATTCCTCGCTACTTCAAGTACTTCCMapped 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|5760865|gb|AI966228.1|AI966228EST: AGCTCTACGAATACGGCGAGCAGCTCAACAATGCCAAGGACAAGTCGCAG AATGTGCAGGATTACCAGGGAATCATAGATGCGGCGAAGACGAGTGTGAAG
genomic: AGCTCTACGAATACGGCGAGCAGCTCAACAATGCCAAGGACAAGTCGCAGgttcggaatt ... gttttggcagAATGTGCAGGATTACCAGGGAATCATAGATGCGGCGAAGACGAGTGTGAAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtgatgttcgagtttggaattagggttttgaattgttttttgttgttttggcagAATGTGCAGGATTACCAGGGAATCATAGATGCGGCGAAGACGAGTGTGAAGGCGAAGCAGCTCGCCGCGCAGCTGATTCCCAAGTTCTTCAAGTTCTTCC
ttttttgttgtttt CT-rich tract
ttttgaattgtttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttcggaatttcgctcttcaaattgttttagggttttggattgtgatgttcgagtttggaattagggttttgaattgttttttgttgttttggcagAATGTGCAGGATTACCAGGGAATCATAGATGCGGCGAAGACGAGTGTGAAGGCGAAGCAGCTCGCCGCGCAGCTGATTCCCAAGTTCTTCAAGTTCTTCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT