Sequence
atgc intronic sequence ATGC exonic sequence...cttgctataaatatttagatatacgtttttctttttcattctcactcctgagatttattacactgaaaaggtgtcctgaagttatgagtttcctttctagGTTGCTCGTGGTGACAAGGCCGGTGGTGAAGCAATTCCTATGCTTTTGAGATTTCCTCGTCTTTCTGATCCTTGGGGTGGCTATGATATGATTGGATTTG
Basic information
species | Glycine max |
transcript | GLYMA10G44490.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G44490.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os11g24540.2 (Oryza sativa), 3'ss of exon 10
cttgctataaatatttagatatacgtttttctttttcattctcactcctgagatttattacactgaaaaggtgtc--ctgaagttatgagtttcctttctagGTTGCTCGTGGTGACAAGGCCGGTGGTGAAGCAATTCCTATGCTTTTGAGATTTCCTCGTCTTTCTGATCCTTGGGGTGGCTATGATATGATTGGATTTG---
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-ttgatatgtgtatcttcagttagatctgtcctgtaagatataccttttatctattatga-agtgttatagtgttagatatgattctatccatactgcacagGTTGCTCGTGGTGATAACTC---TGGGGAAGCAATTCCGATGCTCTTAAGAATACCTCGTTTCTTTGATCCATGGGGTGGCTATGACATGATAGGCTTTGGTG
upper sequence: GLYMA10G44490.1 (Glycine max), 3'ss of exon 10
lower sequence: AT1G05820.1 (Arabidopsis thaliana), 3'ss of exon 10
cttgctataaatatttagatatacgtttttctttttcattctcactcctgagatttattacactgaaaaggtgtcctgaagttatgagtttcctttctagGTTGCTCGTGGTGACAAGGCCGGTGGTGAAGCAATTCCTATGCTTTTGAGATTTCCTCGTCTTTCTGATCCTTGGGGTGGCTATGATATGATTGGATTTG
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cacatagcgagaacgaagaaggtcgatgataggttaactaacctcaatcacgttctagttgattactatattcttctgtttgtgtaaatttatggcatagGTTGCACGTGGGAGCAAAGACACTGGAGAATCTATTCCCATGCTTTTGAGAATTCCACGGCTTTCTGATCCATGGGGTGGTTACAACATGATCGGTTTTG
upper sequence: GLYMA10G44490.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv05s0062g01250.t01 (Vitis vinifera), 3'ss of exon 10
cttgctataaatatttagatatacgtttttctttttcattctcactcctgagatttattacactgaaaaggtgtcctgaagttatgagtttcctttc-------tagGTTGCTCGTGGTGACAAGGCCGGTGGTGAAGCAATTCCTATGCTTTTGAGATTTCCTCGTCTTTCTGATCCTTGGGGTGGCTATGATATGATTGGATTTG
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--ttctattaacacctataaattcagaatga-----caacctaaatatttagattcaccacaattagacaaatttctggtatgagttctcttcttttgtgctgatagGTTGCTCGTGGTGACAACAGTGGTGGAGAATCCATTCCCATGCTGTTGAGAGTTCCTCGTTTCTTTGATCCTTGGGGTGGTTATGATATGATTGGCTTTGMapped 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|208201677|gb|GD996152.1|GD996152EST: TTTGGGTATTCATATCTCCTGTGATATTCCAGAAGAGTGTTATGATTACA GTTGCTCGTGGTGACAAGGCCGGTGGTGAAGCAATTCCTATGCTTTTGAGA
genomic: TTTGGGTATTCATATCTCCTGTGATATTCCAGAAGAGTGTTATGATTACAgtaagtcttt ... tcctttctagGTTGCTCGTGGTGACAAGGCCGGTGGTGAAGCAATTCCTATGCTTTTGAGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcctgagatttattacactgaaaaggtgtcctgaagttatgagtttcctttctagGTTGCTCGTGGTGACAAGGCCGGTGGTGAAGCAATTCCTATGCTTTTGAGATTTCCTCGTCTTTCTGATCCTTGGGGTGGCTATGATATGATTGGATTTG
tttcctttct CT-rich tract
agatttatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cttgctataaatatttagatatacgtttttctttttcattctcactcctgagatttattacactgaaaaggtgtcctgaagttatgagtttcctttctagGTTGCTCGTGGTGACAAGGCCGGTGGTGAAGCAATTCCTATGCTTTTGAGATTTCCTCGTCTTTCTGATCCTTGGGGTGGCTATGATATGATTGGATTTG
cttgcta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cactgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcctgaa