Sequence
atgc intronic sequence ATGC exonic sequenceAAAAGCTGATTCTTGCCAGATTCTGTCAGGAATGTGGAAGACTCCAGCTGAGAGGTGTTTCATGTGGATTGGAGGCTTTCGGCCATCCGAACTCTTCAAGgtgagaagtttctcttatctatgttttgtaaatgttttttctggtttgaaaattgcttcactaatatctggttgaacattgattgcattccatgcttccc...
Basic information
species | Glycine max |
transcript | GLYMA03G28400.2 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G28400.2 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os01g17260.1 (Oryza sativa), 5'ss of exon 8
AAAAGCTGATTCTTGCCAGATTCTGTCAGGAATGTGGAAGACTCCAGCTGAGAGGTGTTTCATGTGGATTGGAGGCTTTCGGCCATCCGAACTCTTCAAGg--tgagaagtttctct-tatctatgttttgtaaatg--ttttttctggtttgaaaattgcttcactaatatctggttgaacattgattgcattccatgcttccc
||||| ||| | || | | ||||| ||||||||||| |||||||||||||||||| ||||| | ||||| || || |||||||| || || |||| || |||| | | | | |||| | || || | | ||| ||| | || ||| || | || || | ||| || |
CAAAGCAGATGTCTTTCATGTGTTATCAGGCATGTGGAAGACACCAGCTGAGAGGTGTTTCTTGTGGCTAGGAGGATTCCGACCATCCGAGCTTTTAAAGgtctgtaaagtcttacgatgttcttgttgtttatttgagccatccttctattgcaaagcccctc-ctattaccaaaaccaatgtttctaccataatattat----
upper sequence: GLYMA03G28400.2 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os01g59350.1 (Oryza sativa), 5'ss of exon 9
AAAAGCTGATTCTTGCCAGATTCTGTCAGGAATGTGGAAGACTCCAGCTGAGAGGTGTTTCATGTGGATTGGAGGCTTTCGGCCATCCGAACTCTTCAAGgtgagaagtttctcttatctatgttttgtaaatgttttttctggtttgaaaattgcttcactaatatctggttgaacattgattgcattccatgcttccc---
||||| || || || | ||||| ||||||||||| || || ||||||||||| ||||||||| | || ||||| || |||| || || | ||||| |||| | || |||| | | ||| | || || || | | ||| |||| || ||| || || | |
CAAAGCAGACGTTTTTCATGTGCTGTCGGGAATGTGGAAAACCCCTGCTGAGAGGTGCTTCATGTGGCTAGGTGGCTTCCGATCATCTGAGCTTCTTAAGgtaagaatatactattat---tatattgcgcctacttattttgaagcctcacccggaggcaaaatgctgacctgaatatatattattttaattgatccaatat
upper sequence: GLYMA03G28400.2 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G125243_T02 (Zea mays), 5'ss of exon 11
AAAAGCTGATTCTTGCCAGATTCTGTCAGGAATGTGGAAGACTCCAGCTGAGAGGTGTTTCATGTGGATTGGAGGCTTTCGGCCATCCGAACTCTTCAAGgtgagaagtttctcttatctatgttttgtaaatgttttttctggtttgaaaattgcttcactaatatctggttgaacattgattgcattccatg---cttccc----
||||| ||| || || | ||||| || ||||||||||| || |||||||| |||||||||||| | || ||||| || |||| || || | ||||| || ||| | | ||||||| |||| | ||| | ||| || | | ||||| | | ||| || |
TAAAGCAGATGTTTTTCATGTGCTGTCTGGGATGTGGAAGACCCCTGCTGAGAGATGTTTCATGTGGTTAGGTGGCTTCCGATCATCTGAGCTTCTTAAGgtagtaa---tctaatggttttgttttg--aatgcacaattaaatttcttgacctcttggctcttgccc--ctgaactccaaggtccccttatgggagttttcattc
upper sequence: GLYMA03G28400.2 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G019907_T01 (Zea mays), 5'ss of exon 5
AAAAGCTGATTCTTGCCAGATTCTGTCAGGAATGTGGAAGACTCCAGCTGAGAGGTGTTTCATGTGGATTGGAGGCTTTCGGCCATCCGAACTCTTCAAGgtgagaagtttctcttatctatgttttgtaaatgttttttctggtttgaaaattgcttcactaatatctggttgaacattgattgcattccatg---cttccc----
| | | ||| || || | ||||| || ||||||||||| || |||||||| |||||||||||| | || ||||| || |||| || | | ||||| || ||| | | ||||||| |||| | |||| | ||| || | | | || | | | ||| || |
TAGATCAGATGTTTTTCATGTGCTGTCTGGGATGTGGAAGACCCCTGCTGAGAGATGTTTCATGTGGTTAGGTGGCTTCCGATCATCTGAGGTTCTTAAGgtagtaa---tctaatggttttgttttg--aatgcacaattaaatttgttgacctcttggctcttgccc--tcgatctccaaggtccccttatgggagttttcgttc
upper sequence: GLYMA03G28400.2 (Glycine max), 5'ss of exon 4
lower sequence: Vv08s0007g05170.t01 (Vitis vinifera), 5'ss of exon 9
AAAAGCTGATTCTTGCCAGATTCTGTCAGGAATGTGGAAGACTCCAGCTGAGAGGTGTTTCATGTGGATTGGAGGCTTTCGGCCATCCGAACTCTTCAAGgtgagaagtttctcttatctatgttttgtaaatgttttttctggtttgaaaattgcttcactaatatctggttgaacattgattgcattccatgcttccc-
|| |||||| | ||| || |||||||||||||||||||| || || || ||||||| ||||||||||| || || || |||| ||| || |||||||||||| | | || | || | || | | | | | || |||| | || |||| | | |||| | | |
CAAGGCTGATGTCTTCCACATCCTGTCAGGAATGTGGAAGACACCTGCAGAACGGTGTTTTATGTGGATTGGCGGTTTCCGTTCATCTGAAGTCCTCAAGgtgagaattgtttcctgatgattccatctat-tttactgtttaccttaaaaacaacatctactatatgttccctggattaaattgggattttggttgaatg
upper sequence: GLYMA03G28400.2 (Glycine max), 5'ss of exon 4
lower sequence: EFJ18699 (Selaginella moellendorffii), 5'ss of exon 1
AAAAGCTGATTCTTGCCAGATTCTGTCAGGAATGTGGAAGACTCCAGCTGAGAGGTGTTTCATGTGGATTGGAGGCTTTCGGCCATCCGAACTCTTCAAGgtgagaagtttctcttatctatgttttgtaaatgttttttctggtttgaaaattgcttcactaatatctggttgaacattgattgcattccatgcttccc
||||| ||| | ||| | | || || |||||||| ||||| || ||||||||||| |||||||| || ||||| ||||||| ||||| ||||||| || | || | | | || | || || | | | | ||| || ||||| ||| ||| | |
GAAAGCCGATGTCTTCCACCTCGTCTCTGGGATGTGGAAAACTCCCGCCGAGAGGTGTTTTATGTGGATGGGTGGCTTCAGGCCATCAGAACTTCTCAAGgtacttggtctttcagtttttttcttagcttgagtcttcgtttccatcgttttccatatactgatcgatggtt-----ttgtttgtctccag--------Mapped 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|208279787|gb|GE080097.1|GE080097EST: CCATCCGAACTCTTCAAG CTTCTTCTAAGTCAGTTGGAGCCTTTAGTCGAGCAACAGATGGATATCTAC
genomic: CCATCCGAACTCTTCAAGgtgagaagtt ... actgttgcagCTTCTTCTAAGTCAGTTGGAGCCTTTAGTCGAGCAACAGATGGATATCTAC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AAAAGCTGATTCTTGCCAGATTCTGTCAGGAATGTGGAAGACTCCAGCTGAGAGGTGTTTCATGTGGATTGGAGGCTTTCGGCCATCCGAACTCTTCAAGgtgagaagtttctcttatctatgttttgtaaatgttttttctggtttgaaaattgcttcactaatatctggttgaacattgattgcattccatgcttccc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG