Sequence
atgc intronic sequence ATGC exonic sequencegtaatcctaattggataaactaagaagccatgcaaaatatatcaaatcaagacgtattgttccattgcctcaatagtttcaaaggttatcagtttctaattgatttggaagctcaatcttttgttgttgcttttccatccagGTTGGATCCAACGGCATGCTTGATGATTGGGAGGAGAATCTGGCTGTAATAACTGCAAACAGAACCAAAGATGATGAACTTGTAATTATTCACCTAGGTG
Basic information
species | Glycine max |
transcript | GLYMA01G41800.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G41800.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os06g01650.2 (Oryza sativa), 3'ss of exon 5
gtaatcctaattggataaactaagaagccatgcaaaatatatcaaatcaagacgtattgttccattgcctcaatagtttcaaaggttatcagtttctaattgatttgga-------agctcaatcttttgttgttgcttttccatccagGTTGGA---TCCAACGGCATGCTTGATGATTGGGAGGAGAATCTGGCTGTAATAACTGCAAACAGAACCAAAGATGATGAACTTGTAATTATTCACCTAGGTG
| ||| | |||||| | ||| || | ||| ||| || || | |||| | | || || | | ||| ||| || || || ||||||| ||||||||| | |||||| ||||| | |||||||||||||| || |||| |||||| |||||||||| ||||| |
-----------------------------------------------cttgacttcccattccatgattttcatacatttta--gttctcatcttttatcgtgtgtggatcattagggttgaacctaacttagcatttttgttggatagGCTGTGAATTCTAAGAGCATGCTGGATGATTGGCAAGAGAATTTGGCTATTATAACTGCAAACAGGACGAAAGGTGATGATCTTGTAATTACGCACCTTG---
upper sequence: GLYMA01G41800.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G442742_T01 (Zea mays), 3'ss of exon 1
gtaatcctaattggataaactaagaagccatgcaaaatatatcaaatcaagacgtattgttccattgcctcaatagtttcaaaggttatcagtttctaattgatttggaagctcaatcttttgttgttgcttttccatccagGTTGGATCCAACGGCATGCTTGATGATTGGGAGGAGAATCTGGCTGTAATAACTGCAAACAGAACCAAAGATGATGAACTTGTAATTATTCACCTAGGTG---
| |||| | || | | || | || ||| | | ||| | || | | ||||| || | |||||| || || | ||| ||| || ||| | |||||||||||||||||| ||||| | || |||||||||||||| |||| ||| | || ||||| | || || ||||
--------------------------------aacaataaacttcctccaataattgggtcc---tgaaacaagaagcttgaag-tcatgatgacatgattgacttt----ttttgcaatttgttttt--ttcctgagtcagCCTGGTCGTAAT---ATGTTGGATGATTGGGAGGAGAATTTGGCTATTATTACTGCAAACAGAACAAAAGGTGACGTTCTAGTAATCACCCATCTTGGTGATT
upper sequence: GLYMA01G41800.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G429241_T01 (Zea mays), 3'ss of exon 5
gtaatcctaattggataaactaagaagccatgcaaaatatatcaaatcaagacgtattgttccattgcctcaatagtttcaaaggttatcagtttctaattgatttggaagctcaatcttttgttgttgcttttcc--atccagGTTGGATCCAACGGCATGCTTGATGATTGGGAGGAGAATCTGGCTGTAATAACTGCAAACAGAACCAAAGATGATGAACTTGTAATTATTCACCTAGGTG---
| ||| ||| | | | | |||||| ||| ||| ||| | || | | || | | ||||| |||||| | ||| ||| | || ||| | |||||||||||||||||| ||||| | || |||||||||||||| ||| ||| | || ||||| | || || ||||
---------------------------------------tgcagcttcatgacttttgggtatcacttatcaataattttcctagtt-----ttttttgtttactctgacttttttttgcaatttgttttttttcctgagtcagCCTGGTCCTAAT---ATGTTGGATGATTGGGAGGAGAATTTGGCTATTATTACTGCAAACAGAACAGAAGGTGACGTTCTAGTAATCACCCATCTTGGTGATT
upper sequence: GLYMA01G41800.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G163277_T01 (Zea mays), 3'ss of exon 5
---------------gtaatcct-aattggataaactaagaagccatgcaaaatat-atcaaatcaagacgtatt-gttccattgcctcaatagtttcaaa--ggttatcagt----ttctaattgatttggaagctcaatcttttgttg--ttgcttttcc--atccagGTTGGATCCAACGGCATGCTTGATGATTGGGAGGAGAATCTGGCTGTAATAACTGCAAACAGAACCAAAGATGATGAACTTGTAATTATTCACCTAGGTG
| | | ||||| | || | | | | | || || | | | | || | || || | || || | ||| || | ||| | | | || | ||||| | ||| |||||| | ||| ||| | || || ||| | |||||||||||||||||| | ||| | || |||||||||||||| |||| ||| || || ||||| | || || ||||
gtacttgcaaagttaatggtttttaattgtttttgctgacattttgtttgattaacgattgcataatgtcttgtttactgcagtgtcatgatttttgggtatcacttaccaataattttcctgcttttctatttactttcttttttgataatttgtttttcctgagtcagCCTGGTCCTAATGGTATGTTGGATGATTGGGAGGAGAATTTAGCTATTATTACTGCAAACAGAACGAAAGGTGACGATCTAGTAATCACCCATCTTGGTG
upper sequence: GLYMA01G41800.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv00s0229g00030.t01 (Vitis vinifera), 3'ss of exon 5
gtaatcctaattggataaactaagaagccatgcaaaatatatcaaatcaagacgtattgttccattgcctcaatagtttcaaaggttatcagtttctaattgatttggaagctcaatcttttgttgttgcttttccatccagGTTGGATCCAACGGCATGCTTGATGATTGGGAGGAGAATCTGGCTGTAATAACTGCAAACAGAACCAAAGATGATGAACTTGTAATTATTCACCTAGGTG
| | || || | | | |||||| | ||||||||| | || | ||| || | ||||||||||| || | |||||| | |||| | || | ||||| || |||||||| |||||| ||||||| |||||||| || ||||| |||||||||||||||||| ||||||| || || |
--------------------------ttcgaccttaacattttgcaaaagtttctattgtatctttgcctcaacaagctc------------tctctctctgtgtctctctctcaatcttttcttatgaaatttcca----gTTTGGGGCTAATAGTATGCTAGACGATTGGGAAGAGAATTTGGCTGTGATAACTGCCAATAGAACAAAAGATGATGAACTTGTACTTATTCATCTTGGAG
upper sequence: GLYMA01G41800.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv15s0021g02730.t01 (Vitis vinifera), 3'ss of exon 6
gtaatcctaattggataaactaagaagccatgcaaaatatatcaaatcaagacgtattgttccattgcctcaatagtttcaaaggttatcagtttctaattgatttggaagctcaatcttttgtt---gttgcttttccatccagGTTGGATCCAACGGCATGCTTGATGATTGGGAGGAGAATCTGGCTGTAATAACTGCAAACAGAACCAAAGATGATGAACTTGTAATTATTCACCTAGGTG
| | | |||| || || | | || | | ||| | || | | |||| | | | ||||||| | || | || || ||| | ||| | ||||| ||||| ||||| |||||| |||| |||||||||| |||||||| ||||||||||| ||||| |||||||| |
-------------------------------------tgtgtggtatcagttagttgtgaaatgattcttctaaaattttctttggcatt--cctttgcttgagcaagtctattgagtttttgttttaatggcctgcagATATGGGCTGGGGCAAACAGTATGCTAGATGAATGGGAAGAGAATTTGGCCATAATAACTGCTAACAGAACAAAAGATGATGAGCTTGTTATTATTCATC------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|15814640|gb|BI786915.1|BI786915EST: CAATTAGTGGGCATCCTGGTGCTTCTAATATGGCTCAGCAGTCTCCTCAG GTTGGATCCAACGGCATGCTTGATGATTGGGAGGAGAATCTGGCTGTAATA
genomic: CAATTAGTGGGCATCCTGGTGCTTCTAATATGGCTCAGCAGTCTCCTCAGgtaatcctaa ... ttccatccagGTTGGATCCAACGGCATGCTTGATGATTGGGAGGAGAATCTGGCTGTAATA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atcagtttctaattgatttggaagctcaatcttttgttgttgcttttccatccagGTTGGATCCAACGGCATGCTTGATGATTGGGAGGAGAATCTGGCTGTAATAACTGCAAACAGAACCAAAGATGATGAACTTGTAATTATTCACCTAGGTG
ttgcttttccatcc CT-rich tract
tttctaattgattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatcctaattggataaactaagaagccatgcaaaatatatcaaatcaagacgtattgttccattgcctcaatagtttcaaaggttatcagtttctaattgatttggaagctcaatcttttgttgttgcttttccatccagGTTGGATCCAACGGCATGCTTGATGATTGGGAGGAGAATCTGGCTGTAATAACTGCAAACAGAACCAAAGATGATGAACTTGTAATTATTCACCTAGGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG