Sequence
atgc intronic sequence ATGC exonic sequence...tagtctgttccatgtactcataacccaagacattgttgggatatttatggatataaggccatccctcttaatttttcccttcatgtgtgttgatttacagATGAGCGACTGAATGACATTGTTGGGAGTGCGTATTATGTTGCACCTGAGGTCCTTCACAGGTCATATAGTCTGGAAGCAGATATATGGAGTATTGGTGT
Basic information
species | Glycine max |
transcript | GLYMA07G05750.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G05750.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os06g50030.1 (Oryza sativa), 3'ss of exon 5
-tagtctgttccatgtactcataacccaagacattgttgggatatttatggatataaggccatccctcttaatttttcccttcatgtgtgttgatttacagATGAGCGACTGAATGACATTGTTGGGAGTGCGTATTATGTTGCACCTGAGGTCCTTCACAGGTCATATAGTCTGGAAGCAGATATATGGAGTATTGGTGT
|| | | || || | || ||||| | | | || | ||| | ||| | ||| || |||| | | ||||||| | || ||||| |||||||| ||||| ||||||||||| || ||||| | ||||| ||||||||| |||||||||| || |||||||| |||||
ttaatgaactttggctaactatttttctcttcactgttgcttggtatttcattagctgaccagacaccttgttctttgtattt-tgtgctatataatgcagATGAAAGGCTTAATGATATTGTTGGAAGTGCATATTATGTTGCCCCAGAGGTTTTACACAGATCATATAGTATGGAAGCAGACATTTGGAGTATAGGTGT
upper sequence: GLYMA07G05750.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os10g36710.1 (Oryza sativa), 3'ss of exon 5
-------------------------------------------------------------------------------------tagtctgttccatgtactcataacccaagaca--ttgttgggatatttatg-gatataaggccatccctcttaatttttcccttcatgtgtgttgatttacagATGAGCGACTGAATGACATTGTTGGGAGTGCGTATTATGTTGCACCTGAGGTCCTTCACAGGTCATATAGTCTGGAAGCAGATATATGGAGTATTGGTGT
| || | | |||| | || || | || ||| | | | | | | | | || | | || || || ||| || || ||||||||||| || | ||||| |||||||| ||||| || |||||||| || || ||||| || ||||||||||| ||||||||| || ||||||||||||||
gtatttccccccaaaagaattatgcccttccaaagaacttgtgtttcatcttatgttttttttttactctattatgaatttgtcctgacatggtgaaaatactgttttttgaaaccaaatagtgaaaatactcaagtgttttgatgacacacatatttatgattgg--tca-atgccttcttttacagATGAAAGATTAAATGATATTGTTGGTAGTGCATACTATGTTGCTCCAGAAGTCCTACATAGGTCATATAGCACGGAAGCAGACATGTGGAGTATTGGTGT
upper sequence: GLYMA07G05750.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G115518_T01 (Zea mays), 3'ss of exon 5
tagtctgttccat--gtactcataacccaagacattgttgggat-atttatggatataaggccatccctcttaatttttcccttcatgtgtgttgatttacagATGAGCGACTGAATGACATTGTTGGGAGTGCGTATTATGTTGCACCTGAGGTCCTTCACAGGTCATATAGTCTGGAAGCAGATATATGGAGTATTGGTGT
| | | | || | | | | | || || | | | | || | || || | |||||||| | || || | ||||||| | || ||||| |||||||| ||||| ||||||||||| || ||||| || ||||| ||||| ||| |||||||||| || |||||||| |||||
tggaatacactatcaacatttacagttaatattttttttcagttcactcattaactaaatcttatac---ttaattttgtgtgttctgcactatgcaatgcagATGAAAGGCTCAATGATATTGTTGGAAGTGCTTATTATGTTGCTCCAGAGGTTCTACACAGATCATACAGTATGGAAGCAGACATTTGGAGTATAGGTGT
upper sequence: GLYMA07G05750.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G031893_T01 (Zea mays), 3'ss of exon 5
---------------------------------------------------tagtctgttccatgtact----cataacccaagacattgttgggatatttatggatataaggccatccctcttaatttttcccttcatgtgtgttgatttacagATGAGCGACTGAATGACATTGTTGGGAGTGCGTATTATGTTGCACCTGAGGTCCTTCACAGGTCATATAGTCTGGAAGCAGATATATGGAGTATTGGTGT
| | |||| | || | ||||| | |||| | | || || | | | || | | | | | || | | | | | ||||||||||| | || |||||||||||||| ||||| || |||||||| || || ||| | || ||||||||||| |||||||| || ||||| ||||||||
gtattacatacctccgcacaagggccatccaattgtaaagttctgttttacaaatatgttagaagtccattgacataaaatgaaacat-gatatgaccttcctccaaaaaatgttctaacgcctgatgctcctgatgccttttccccctttacagATGAAAGGCTTAATGACATTGTTGGAAGTGCATACTATGTTGCTCCAGAAGTCTTGCATAGGTCATATAGCACAGAAGCAGACATGTGGAGCATTGGTGT
upper sequence: GLYMA07G05750.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G100560_T01 (Zea mays), 3'ss of exon 5
---------------------------------------------------tagtctgttccatgtac----tcataacccaagacattgttgggatatttatggatataaggccatccctcttaatttttcccttcatgtgtgttgatttacagATGAGCGACTGAATGACATTGTTGGGAGTGCGTATTATGTTGCACCTGAGGTCCTTCACAGGTCATATAGTCTGGAAGCAGATATATGGAGTATTGGTGT
| | |||| | || | ||||| | |||| | | || || | | | || | | | | || | | | | | | ||||||||||| | || |||||||||||||| ||||| || |||||||| || || ||| | || ||||||||||| |||||||| || ||||| ||||||||
gtattacatacctccacacaagggccatccaattgtaaagttctgttttacaaatatgttagaagtccattgccataaaatgaaacat-gatatgaccttcctccaaaaaatgttctaatgcctgatgctcctgatgctttttccccctttacagATGAAAGGCTTAATGACATTGTTGGAAGTGCATACTATGTTGCTCCAGAAGTCTTGCATAGGTCATATAGCACAGAAGCAGACATGTGGAGAATTGGTGT
upper sequence: GLYMA07G05750.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G138245_T01 (Zea mays), 3'ss of exon 5
------------------------------------------------------tagtctgttccatgtact----cataacccaagacattgttgggatatttatggatataaggccatccctcttaatttttcccttcatgtgtgttgatttacagATGAGCGACTGAATGACATTGTTGGGAGTGCGTATTATGTTGCACCTGAGGTCCTTCACAGGTCATATAGTCTGGAAGCAGATATATGGAGTATTGGTGT
| | |||| | || | ||||| | | |||| | | || || | | | | | | | | || | | | | | |||||||| | || |||||||||||||| ||||| || || ||||| || || ||| | || ||||||||||| |||||||| || ||||||||||||||
gtattacatacctccacacaaggatcatccattcctaatggagttctattttacaaatatgttagaagtccattgacataaaacgaaacat-gatatgagcttcctctaaaagatgttttaaagcctgatgctcctgat-gcctcctccccctcacagATGAAAGGCTTAATGACATTGTTGGAAGTGCATACTACGTTGCTCCAGAAGTCTTGCATAGGTCATATAGCACAGAAGCAGACATGTGGAGTATTGGTGT
upper sequence: GLYMA07G05750.1 (Glycine max), 3'ss of exon 5
lower sequence: AT2G46700.2 (Arabidopsis thaliana), 3'ss of exon 4
tagtctgttccatgtactcataacccaagacattgttgggatatttatggatataaggccatccctcttaatttttcccttcatgtgtgttgatttacagATGAGCGACTGAATGACATTGTTGGGAGTGCGTATTATGTTGCACCTGAGGTCCTTCACAGGTCATATAGTCTGGAAGCAGATATATGGAGTATTGGTGT
|| | | |||| || | |||| ||| || | |||| | | | | || ||| | | | || ||||||| |||||||||| || ||||| ||||| || ||||| || ||||| || | |||||||||||||| || || || ||||||||||||||||| ||
------gtaagactt-ttcattctttcaggccttgtcactatactt-tccttatagctgcctactagtgaaattt---gattgaattcctcaat--gcagATGAAAGACTGAATGATATAGTTGGAAGTGCCTACTATGTCGCGCCTGAAGTTTTACACAGGTCATATAGCCTTGAGGCTGATATATGGAGTATTGGAGT
upper sequence: GLYMA07G05750.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv15s0048g02840.t01 (Vitis vinifera), 3'ss of exon 5
tagtctgttccatgtactcataacccaagacattgttgggatatttatggatataaggccatccctcttaatttttcccttc-atgtgtgttgatttacagATGAGCGACTGAATGACATTGTTGGGAGTGCGTATTATGTTGCACCTGAGGTCCTTCACAGGTCATATAGTCTGGAAGCAGATATATGGAGTATTGGTGT
| | | | | || | ||| | | | | | | ||||| || | || | | ||| |||||| | | || || | ||||||| |||| ||||| |||||||| ||||| || |||||||||||||| || || || || || ||| ||||||||||||||| |||||| |||| ||
tcatttcataacttagcttgttacctatttccctctcaagtcaaa-atggaaattttcttacccgtttgtttttcccccttccaaatatgcatatatgcagATGAAAGACTCAATGATATTGTTGGAAGTGCATACTATGTTGCACCTGAAGTTCTCCATAGATCCTATTATCTGGAAGCAGATATTTGGAGTGTTGGCGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatggatataaggccatccctcttaatttttcccttcatgtgtgttgatttacagATGAGCGACTGAATGACATTGTTGGGAGTGCGTATTATGTTGCACCTGAGGTCCTTCACAGGTCATATAGTCTGGAAGCAGATATATGGAGTATTGGTGT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tagtctgttccatgtactcataacccaagacattgttgggatatttatggatataaggccatccctcttaatttttcccttcatgtgtgttgatttacagATGAGCGACTGAATGACATTGTTGGGAGTGCGTATTATGTTGCACCTGAGGTCCTTCACAGGTCATATAGTCTGGAAGCAGATATATGGAGTATTGGTGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- gtctgtt
- - - - - catgtac
- - - - - - - - - - -aacccaa
- - - - - - - - - - - - - - - - -tgttggg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtgtgt