Sequence
atgc intronic sequence ATGC exonic sequence...tttagtttcttaatctttgaaaagtatatatctctgaacaacacttgctgtctctacttttcaatcctttgttcatcaaatcttattagcttgcatacagGGCAGATTCTGCAGCTGTGGCAATCACCACGACAGATCTTGTTAGCAAGAGTGTGGCAATTGAGTCTCTG
Basic information
species | Glycine max |
transcript | GLYMA10G05090.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G05090.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os03g17120.2 (Oryza sativa), 3'ss of exon 7
tttagtttcttaatctttgaaaagtatatatctctgaacaacacttgctgtctctacttttcaatc-ctttgttcatcaaatcttattagcttgcat-acagGGCAGATTCTGCAGCTGTGGCAATCACCACGACAGATCTTGTTAGCAAGAGTGTGGCAATTGAGTCTCTG
|| || | | || | | | || || ||| | || | || || | | | | || | || | |||| ||| |||||||||||||||| || || || ||||| |||||||||||||| | || | || | |
----------gtatagttagcacgcat-tgcatgtaaaatgcatctgcaagtgtcatttctatatgactatatctaacttattacctctgcccctgtcacagTGCAAATTCTGCAGCTGTGGCCATTACAACTACAGACCTTGTTAGCAAGAGCATCGCTGTACAGACAGAG
upper sequence: GLYMA10G05090.1 (Glycine max), 3'ss of exon 7
lower sequence: AT2G37500.1 (Arabidopsis thaliana), 3'ss of exon 8
-tttagtttcttaatctttgaaaagtatatatctctgaacaacacttgctgtctctacttttcaatcctttgttcatcaaatcttattagcttgcatacagGGCAGATTCTGCAGCTGTGGCAATCACCACGACAGATCTTGTTAGCAAGAGTGTGGCAATTGAGTCTCTG
| || | | | ||| | || | | | ||| || | |||| | || ||| ||| | | | | || ||||||||||||||| ||||| || ||||| || ||||||||||| ||||||||||| ||| |||| || | |
gtataatcttcttttctcaatctctcttttaagttcgtaggtcacagtcttcactttctttggtagccattgggcataaccatatgaatgttgaaatgcagGGCAGATTCTGCTGCTGTAGCTATCACAACAACAGATCTTGTAAGCAAGAGTGTTGCAGTTGAATCACAG
upper sequence: GLYMA10G05090.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv08s0040g03320.t01 (Vitis vinifera), 3'ss of exon 8
---tttagtttcttaatctttgaaaagtatatatctctgaacaacacttgctgtctctacttttcaatcctttgttcatcaaatcttattagcttgcat-acagGGCAGATTCTGCAGCTGTGGCAATCACCACGACAGATCTTGTTAGCAAGAGTGTGGCAATTGAGTCTCTG
|| | |||| || ||| || ||| || ||| | ||| |||| || || | | |||||||| | || |||||||||||||||||| || || || ||||| || || | || |||||||||||||||||||| ||| |
tttttgggcatcttgatatttctttttgattgatccctttgt----cttcttttctgtactattttattgaaacattcttgaatcttatatctggggattgcagGGCAGATTCTGCAGCAGTAGCTATTACCACAACCGACTTAGTGAGCAAGAGTGTGGCAATTGAATCTGAGMapped 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|16277576|gb|BI942452.1|BI942452EST: TTAAACTCACTTCCCACTCTAGTAAATTCACTGTCATCTTCAGTTGAGGG GGCAGATTCTGCAGCTGTGGCAATCACCACGACAGATCTTGTTAGCAAGAG
genomic: TTAAACTCACTTCCCACTCTAGTAAATTCACTGTCATCTTCAGTTGAGGGgtaattcctg ... ttgcatacagGGCAGATTCTGCAGCTGTGGCAATCACCACGACAGATCTTGTTAGCAAGAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgctgtctctacttttcaatcctttgttcatcaaatcttattagcttgcatacagGGCAGATTCTGCAGCTGTGGCAATCACCACGACAGATCTTGTTAGCAAGAGTGTGGCAATTGAGTCTCTG
atcaaatcttatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttagtttcttaatctttgaaaagtatatatctctgaacaacacttgctgtctctacttttcaatcctttgttcatcaaatcttattagcttgcatacagGGCAGATTCTGCAGCTGTGGCAATCACCACGACAGATCTTGTTAGCAAGAGTGTGGCAATTGAGTCTCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - gaaaagta
- - - - - - - - - - - - - - - -ctctgaa
- - - - - - - - - - - - - - - - - - - caacact
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tcctttg