Sequence
atgc intronic sequence ATGC exonic sequence...tagtctgttccatgtactcataacccaagacattgttgggatatttatggatataaggtcatccctcttaatttttcccttcgtgtgtgttgatttacagATGAACGACTGAATGACATTGTCGGGAGTGCATATTATGTTGCACCTGAGGTCCTTCACAGGTCATATAGTCTGGAAGCAGATATATGGAGTATTGGTGT
Basic information
species | Glycine max |
transcript | GLYMA16G02340.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G02340.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os06g50030.1 (Oryza sativa), 3'ss of exon 5
-tagtctgttccatgtactcataacccaagacattgttgggatatttatggatataaggtcatccctcttaatttttcccttcgtgtgtgttgatttacagATGAACGACTGAATGACATTGTCGGGAGTGCATATTATGTTGCACCTGAGGTCCTTCACAGGTCATATAGTCTGGAAGCAGATATATGGAGTATTGGTGT
|| | | || || | || ||||| | | | || | || | ||| | ||| || |||| | | |||||||| | || ||||| ||||| || ||||||||||||||||| || ||||| | ||||| ||||||||| |||||||||| || |||||||| |||||
ttaatgaactttggctaactatttttctcttcactgttgcttggtatttcattagctgaccagacaccttgttctttgtattt-tgtgctatataatgcagATGAAAGGCTTAATGATATTGTTGGAAGTGCATATTATGTTGCCCCAGAGGTTTTACACAGATCATATAGTATGGAAGCAGACATTTGGAGTATAGGTGT
upper sequence: GLYMA16G02340.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os10g36710.1 (Oryza sativa), 3'ss of exon 5
-------------------------------------------------------------------------------------tagtctgttccatgtactcataacccaagaca--ttgttgggatatttatg-gatataaggtcatccctcttaatttttcccttcgtgtgtgttgatttacagATGAACGACTGAATGACATTGTCGGGAGTGCATATTATGTTGCACCTGAGGTCCTTCACAGGTCATATAGTCTGGAAGCAGATATATGGAGTATTGGTGT
| || | | |||| | || || | || ||| | | | | | | | | || | | || || || || || |||||||||||| || | ||||| ||||| || |||||||| |||||||| || || ||||| || ||||||||||| ||||||||| || ||||||||||||||
gtatttccccccaaaagaattatgcccttccaaagaacttgtgtttcatcttatgttttttttttactctattatgaatttgtcctgacatggtgaaaatactgttttttgaaaccaaatagtgaaaatactcaagtgttttgatgacacacatatttatgattggtca---atgccttcttttacagATGAAAGATTAAATGATATTGTTGGTAGTGCATACTATGTTGCTCCAGAAGTCCTACATAGGTCATATAGCACGGAAGCAGACATGTGGAGTATTGGTGT
upper sequence: GLYMA16G02340.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G115518_T01 (Zea mays), 3'ss of exon 5
tagtctgttccat--gtactcataacccaagacattgttgggat-atttatggatataaggtcatccctcttaatttttcccttcgtgtgtgttgatttacagATGAACGACTGAATGACATTGTCGGGAGTGCATATTATGTTGCACCTGAGGTCCTTCACAGGTCATATAGTCTGGAAGCAGATATATGGAGTATTGGTGT
| | | | || | | | | | || || | | | | || | || | || | |||||||| | || || | |||||||| | || ||||| ||||| || ||||| ||||||||||| || ||||| || ||||| ||||| ||| |||||||||| || |||||||| |||||
tggaatacactatcaacatttacagttaatattttttttcagttcactcattaactaaatcttatac---ttaattttgtgtgttctgcactatgcaatgcagATGAAAGGCTCAATGATATTGTTGGAAGTGCTTATTATGTTGCTCCAGAGGTTCTACACAGATCATACAGTATGGAAGCAGACATTTGGAGTATAGGTGT
upper sequence: GLYMA16G02340.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G031893_T01 (Zea mays), 3'ss of exon 5
---------------------------------------------------tagtctgttccatgtact----cataacccaagacattgttgggatatttatggatataaggtcatccctcttaatttttcccttcgtgtgtgttgatttacagATGAACGACTGAATGACATTGTCGGGAGTGCATATTATGTTGCACCTGAGGTCCTTCACAGGTCATATAGTCTGGAAGCAGATATATGGAGTATTGGTGT
| | |||| | || | ||||| | |||| | | || || | | | || || | | | | || | | | | | |||||||||||| | || ||||||||||| || |||||||| |||||||| || || ||| | || ||||||||||| |||||||| || ||||| ||||||||
gtattacatacctccgcacaagggccatccaattgtaaagttctgttttacaaatatgttagaagtccattgacataaaatgaaacat-gatatgaccttcctccaaaaaatgttctaacgcctgatgctcctgatgccttttccccctttacagATGAAAGGCTTAATGACATTGTTGGAAGTGCATACTATGTTGCTCCAGAAGTCTTGCATAGGTCATATAGCACAGAAGCAGACATGTGGAGCATTGGTGT
upper sequence: GLYMA16G02340.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G100560_T01 (Zea mays), 3'ss of exon 5
---------------------------------------------------tagtctgttccatgtac----tcataacccaagacattgttgggatatttatggatataaggtcatccctcttaatttttcccttcgtgtgtgttgatttacagATGAACGACTGAATGACATTGTCGGGAGTGCATATTATGTTGCACCTGAGGTCCTTCACAGGTCATATAGTCTGGAAGCAGATATATGGAGTATTGGTGT
| | |||| | || | ||||| | |||| | | || || | | | || || | | | || | | | | | | |||||||||||| | || ||||||||||| || |||||||| |||||||| || || ||| | || ||||||||||| |||||||| || ||||| ||||||||
gtattacatacctccacacaagggccatccaattgtaaagttctgttttacaaatatgttagaagtccattgccataaaatgaaacat-gatatgaccttcctccaaaaaatgttctaatgcctgatgctcctgatgctttttccccctttacagATGAAAGGCTTAATGACATTGTTGGAAGTGCATACTATGTTGCTCCAGAAGTCTTGCATAGGTCATATAGCACAGAAGCAGACATGTGGAGAATTGGTGT
upper sequence: GLYMA16G02340.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G138245_T01 (Zea mays), 3'ss of exon 5
------------------------------------------------------tagtctgttccatgtact----cataacccaagacattgttgggatatttatggatataaggtcatccctcttaatttttcccttcgtgtgtgttgatttacagATGAACGACTGAATGACATTGTCGGGAGTGCATATTATGTTGCACCTGAGGTCCTTCACAGGTCATATAGTCTGGAAGCAGATATATGGAGTATTGGTGT
| | |||| | || | ||||| | | |||| | | || || | | | | || | | | || | | | | | | ||||||||| | || ||||||||||| || |||||||| || ||||| || || ||| | || ||||||||||| |||||||| || ||||||||||||||
gtattacatacctccacacaaggatcatccattcctaatggagttctattttacaaatatgttagaagtccattgacataaaacgaaacat-gatatgagcttcctctaaaagatgttttaaagcctgatgctcctgat-gcctcctccccctcacagATGAAAGGCTTAATGACATTGTTGGAAGTGCATACTACGTTGCTCCAGAAGTCTTGCATAGGTCATATAGCACAGAAGCAGACATGTGGAGTATTGGTGT
upper sequence: GLYMA16G02340.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G173928_T01 (Zea mays), 3'ss of exon 5
----tagtctgttccatgtactcataacccaagacattgttgggatatttatggatataaggtcatccctcttaatttttcccttcgtgtgtgttgatttacagATGAACGACTGAATGACATTGTCGGGAGTGCATATTATGTTGCACCTGAGGTCCTTCACAGGTCATATAGTCTGGAAGCAGATATATGGAGTATTGGTGT
|| | | ||| || | | | | | | || | ||| || | || | || | ||||| || | |||| || |||||||| | || ||||| ||||| || || ||||||||||| || || ||||| || ||||| || || ||| |||||||||| || |||||||| |||||
ttggaagacactatcat-tatttacagttaaccatttcttttgctcattcattaactcaatcttatac---ttaatcttatatgttctgtgctacatattgcagATGAAAGGCTCAATGATATTGTTGGAAGCGCATATTATGTCGCTCCAGAGGTTCTACACAGATCGTACAGTATGGAAGCAGACATTTGGAGTATAGGTGT
upper sequence: GLYMA16G02340.1 (Glycine max), 3'ss of exon 6
lower sequence: AT2G46700.2 (Arabidopsis thaliana), 3'ss of exon 4
tagtctgttccatgtactcataacccaagacattgttgggatatttatggatataaggtcatccctcttaatttttcccttcgtgtgtgttgatttacagATGAACGACTGAATGACATTGTCGGGAGTGCATATTATGTTGCACCTGAGGTCCTTCACAGGTCATATAGTCTGGAAGCAGATATATGGAGTATTGGTGT
|| | | |||| || | |||| ||| || | |||| | | | | || ||| | | | | || |||||||| |||||||||| || || || ||||| || ||||| || ||||| || | |||||||||||||| || || || ||||||||||||||||| ||
------gtaagactt-ttcattctttcaggccttgtcactatactt-tccttatagctgcctactagtgaaattt---gattgaattcctcaat--gcagATGAAAGACTGAATGATATAGTTGGAAGTGCCTACTATGTCGCGCCTGAAGTTTTACACAGGTCATATAGCCTTGAGGCTGATATATGGAGTATTGGAGT
upper sequence: GLYMA16G02340.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv15s0048g02840.t01 (Vitis vinifera), 3'ss of exon 5
tagtctgttccatgtactcataacccaagacattgttgggatatttatggatataaggtcatccctcttaatttttcccttc-gtgtgtgttgatttacagATGAACGACTGAATGACATTGTCGGGAGTGCATATTATGTTGCACCTGAGGTCCTTCACAGGTCATATAGTCTGGAAGCAGATATATGGAGTATTGGTGT
| | | | | || | ||| | | | | | | ||||| || | | || | | ||| |||||| | || || | |||||||| |||| ||||| ||||| || |||||||| |||||||||||||| || || || || || ||| ||||||||||||||| |||||| |||| ||
tcatttcataacttagcttgttacctatttccctctcaagtcaaa-atggaaattttcttacccgtttgtttttcccccttccaaatatgcatatatgcagATGAAAGACTCAATGATATTGTTGGAAGTGCATACTATGTTGCACCTGAAGTTCTCCATAGATCCTATTATCTGGAAGCAGATATTTGGAGTGTTGGCGTMapped 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|151400987|gb|EV270801.1|EV270801EST: TGCTGACATGAAGTTGATTGATTTTGGTCTTTCTGACTTCATCCGGCCAG ATGAACGACTGAATGACATTGTCGGGAGAGCATATTATGTTGCACCTGAGG
genomic: TGCTGACATGAAGTTGATTGATTTTGGTCTTTCTGACTTCATCCGGCCAGgtaataatta ... tgatttacagATGAACGACTGAATGACATTGTCGGGAGTGCATATTATGTTGCACCTGAGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatggatataaggtcatccctcttaatttttcccttcgtgtgtgttgatttacagATGAACGACTGAATGACATTGTCGGGAGTGCATATTATGTTGCACCTGAGGTCCTTCACAGGTCATATAGTCTGGAAGCAGATATATGGAGTATTGGTGT
tcttaattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tagtctgttccatgtactcataacccaagacattgttgggatatttatggatataaggtcatccctcttaatttttcccttcgtgtgtgttgatttacagATGAACGACTGAATGACATTGTCGGGAGTGCATATTATGTTGCACCTGAGGTCCTTCACAGGTCATATAGTCTGGAAGCAGATATATGGAGTATTGGTGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- gtctgtt
- - - - - catgtac
- - - - - - - - - - -aacccaa
- - - - - - - - - - - - - - - - -tgttggg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtgtgtg