Sequence
atgc intronic sequence ATGC exonic sequencegtaagacttagctgaatcataatttcatcaatccctattttgttgcatcaacccattgggctgttgaagctgcacttgttgcatcataattttgtgacattcctttcacaaattttaaaaattgaagttttattgtcttttctttcagTTGAAGGATCTACAGGTTTTCACCATTGTCCGTGTGATATTCCAACTTGCTGAAGAGATCCCTTGCATTTCTGCTGTTGTTGTAGCTCTGCTTGCTGAG
Basic information
species | Glycine max |
transcript | GLYMA07G09070.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G09070.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os07g22640.4 (Oryza sativa), 3'ss of exon 5
gtaagacttagctgaatcataatttcatcaatccctattttgttgcatcaacccattgggctgttgaagctgcacttgttgcatcataattttgtgacattcctttcacaaattttaaaaattgaagttttattgtcttttctttcagTTGAAGGATCTACAGGTTTTCACCATTGTCCGTGTGATATTCCAACTTGCTGAAGAGATCCCTTGCATTTCTGCTGTTGTTGTAGCTCTGCTTGCTGAG
||| | | | ||| || || | | || || || | | | | ||| || | | | | | | ||| | | || ||| | || ||||| || || | ||||||||||||||| |||| ||||| | || |||||||||||||| |||||||||||||| ||||| ||||| |||
-----------------------------------------gttttactatttctttgttcttttcagtgattaattcttacagaagta------aatctctcttgaactagtcatgatatc---atctttgccaaccat-ctcacagCTCAAAGATCTTCAAGTCTACACCATTGTCCGTGTTGTATTTCAACTATCAGAGGAGATCCCTTGCATCTCTGCTGTTGTTGTTGCTCTTCTTGCAGAG
upper sequence: GLYMA07G09070.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G092129_T02 (Zea mays), 3'ss of exon 5
gtaagacttagctgaatcataatttcatcaatccctattttgttgcatcaacccattgggctgttgaagctgcacttgttgcatcataattttgtgacattcctttcacaaattttaaaaattgaagttttattgtct---tttctttcagTTGAAGGATCTACAGGTTTTCACCATTGTCCGTGTGATATTCCAACTTGCTGAAGAGATCCCTTGCATTTCTGCTGTTGTTGTAGCTCTGCTTGCTGAG
| | ||| || | ||||| | | | || | ||| ||| | | |||| || || |||| ||| | |||||||| ||||| | || | | ||||| ||||| ||||| ||||||| |||||||||||||||||||||||||| ||||| ||||||||
--------------------------------------------------------------------gttttctttgccaca--acaatttgggaagacaactgttcttgattataagtccttatatttt-ttacctaaccatcttgcagCTCAAGGATCTTCAGGTCTATACTGTCATACGTGTTATATTTCAACTGTCTGAAGACATCCCTTGCATTTCTGCTGTTGTTGTGGCTCTCCTTGCTGAT
upper sequence: GLYMA07G09070.1 (Glycine max), 3'ss of exon 6
lower sequence: AT3G61050.1 (Arabidopsis thaliana), 3'ss of exon 6
gtaagacttagctgaatcataatttcatcaatccctattttgttgcatcaacccattgggctgttgaagctgcacttgttgcatcataattttg--tgacattcctttca-caaattttaaaaatt-----gaagttttattgtcttttctttcagTTGAAGGATCTACAGGTTTTCACCATTGTCCGTGTGATATTCCAACTTGCTGAAGAGATCCCTTGCATTTCTGCTGTTGTTGTAGCTCTGCTTGCTGAG
| | | || | || | | ||| | || | || | || | | || | || || || || | |||||||||||||| || |||||||| ||| ||||| || || |||||||| || ||||| ||||| || |||||||||||||| ||||| |||||||||
-----------------------------------------------------------gttactagagagatattttagtatttgtcgtttgggttgtcgtttgtgccaatagagattgagtatctctacaaacacttgtttctggctgaaacagTTGAAGGATCTTCAAGTTTTCACAGTTGCACGTGTTATCTTTCAACTTGCGGATGAGATTCCTTGTATATCTGCTGTTGTTGTTGCTCTACTTGCTGAG
upper sequence: GLYMA07G09070.1 (Glycine max), 3'ss of exon 6
lower sequence: AT3G61030.1 (Arabidopsis thaliana), 3'ss of exon 5
gtaagacttagctgaatcataatttcatcaatccctattttgttgcatcaacccattgggctgttgaagctgcacttgttgcatcataattttgtgacattcctttcacaaattttaaaaattgaagttttattgtcttttctttcagTTGAAGGATCTACAGGTTTTCACCATTGTCCGTGTGATATTCCAACTTGCTGAAGAGATCCCTTGCATTTCTGCTGTTGTTGTAGCTCTGCTTGCTGAG
| | | | | || | | ||| | | ||||||| || | | | | || || || | |||||||||||||| || |||||||| ||| ||||| || || |||||||| || ||||| ||| | || |||||||||||||| ||||| || ||||||
----------------------------------------------gttactagagagatatttttagtatttgtcgtttgggttgtcgttttgtgccaaatagagattgagtatctcta--caaacacttgtttctggctgaaacagTTGAAGGATCTTCAAGTTTTCACAGTTGCACGTGTTATCTTTCAACTTGCGGATGAGATTCCTCGTATATCTGCTGTTGTTGTTGCTCTACTGGCTGAG
upper sequence: GLYMA07G09070.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv15s0048g01410.t01 (Vitis vinifera), 3'ss of exon 6
gtaagacttagctgaatcataatttcatcaatccctattttgttgcatcaacccattgggctgttgaagctgcacttgttgcatcataattttgtgacattcctttcacaaattttaaaaattgaagttttattgtcttttctttcagTTGAAGGATCTACAGGTTTTCACCATTGTCCGTGTGATATTCCAACTTGCTGAAGAGATCCCTTGCATTTCTGCTGTTGTTGTAGCTCTGCTTGCTGAG
|| | ||| | ||| || | | |||| | | ||| | | | | ||| | | | | | | | ||| || ||| || | || || | |||||||||||||| || |||||||| ||| ||||| || ||||||||||| |||||||| ||||| |||||||||||| |||| ||||| ||| |||||
----------------------gttggtgaattattctttcctt-ctttgttccat--agtttccatgcctgga--tatcattttcaaatcctagcatacaacatagatgtaatttgaatcttgttattgtgctg---ctttctgcagTTGAAGGATCTCCAAGTTTTCACTGTTGCTCGTGTTATCTTCCAACTTGCAGAAGAGATACCTTGTATTTCTGCTGTTATTGTTGCTCTACTTTCTGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtgacattcctttcacaaattttaaaaattgaagttttattgtcttttctttcagTTGAAGGATCTACAGGTTTTCACCATTGTCCGTGTGATATTCCAACTTGCTGAAGAGATCCCTTGCATTTCTGCTGTTGTTGTAGCTCTGCTTGCTGAG
ttttattgtcttttct CT-rich tract
aaattttaaaaattga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagacttagctgaatcataatttcatcaatccctattttgttgcatcaacccattgggctgttgaagctgcacttgttgcatcataattttgtgacattcctttcacaaattttaaaaattgaagttttattgtcttttctttcagTTGAAGGATCTACAGGTTTTCACCATTGTCCGTGTGATATTCCAACTTGCTGAAGAGATCCCTTGCATTTCTGCTGTTGTTGTAGCTCTGCTTGCTGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT