Sequence
atgc intronic sequence ATGC exonic sequence...gatttttcgtgagtgaagtttatttaaattgtttgcctatatatctaaaaactcaaaacattaaccccgtttacgatgtttttaatcccaacttgtacagTTGTTTTACAACTGAGATTCTGGAGGGATTTGATGTTCAGAGAACAAGTGGCTTAGGTGATACTCTAAGGAAGTATGGTTATCTTACCCAAGCAATTTCT
Basic information
species | Glycine max |
transcript | GLYMA11G20970.1 |
intron # | 12 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G20970.1 (Glycine max), 3'ss of exon 12
lower sequence: GRMZM5G822970_T02 (Zea mays), 3'ss of exon 2
gatttttcgtgagtgaagtttatttaaattgtttgcctatatatctaaaaactcaaaacattaaccccgtttacgatgtttttaatccca-acttgt--acagTTGTTTTACAACTGAGATTCTGGAGGGATTTGATGTTCAGAGAACAAGTGGCTTAGGTGATACTCTAAGGAAGTATGGTTATCTTACCCAAGCAATTTCT
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-attcttcccactaatatgtgatgtcaatattagtatcatggaatatactatttattgcgcca--tacgtatgtttttttattggtctgacatttattttcagCTGTTTCACCACTGAGATTCTCGATGGATTTGATGTTCAGAGAACTACTGGGTTTGCCGATACCCAGAAGAGATATGTTGATCTTACACGTTCGGTAATA
upper sequence: GLYMA11G20970.1 (Glycine max), 3'ss of exon 12
lower sequence: AT4G30870.1 (Arabidopsis thaliana), 3'ss of exon 12
---gatttttcgtgagtgaagtttatttaaattgtttgcctatatatc-taaaaactcaaaacattaaccccgtttacgatgtttttaatcccaacttgtacagTTGTTTTACAACTGAGATTCTGGAGGGATTTGATGTTCAGAGAACAAGTGGCTTAGGTGATACTCTAAGGAAGTATGGTTATCTTACCCAAGCAATTTCT
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gtaagattatctttataacgcaatattttgattggttgtgcatttttcgttgagatttggaac--caaacttgtc------atcctttgtatgtgcttcta--gTTGTTTCACGACAGAGATTCTGGAGGGATTTGATGTGCTGAGGACACACGGGCTGGGTGAGACGCTAAGAAAATACGGCTACCTCACGAAATCAATATAT
upper sequence: GLYMA11G20970.1 (Glycine max), 3'ss of exon 12
lower sequence: Vv13s0019g01290.t01 (Vitis vinifera), 3'ss of exon 12
-gatttttcgtgagtgaagtttatttaaattgtttgcctatatatctaa---aaactcaaaacattaaccccgtttacgatgtttttaatcccaacttgtacagTTGTTTTACAACTGAGATTCTGGAGGGATTTGATGTTCAGAGAACAAGTGGCTTAGGTGATACTCTAAGGAAGTATGGTTATCTTACCCAAGCAATTTCT
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gcacttttgcattgtctggcctagttag--tgcaggctattatatttattctgtattacaaattctttcttatcctattgtaatattatgttttg--tgtgcagTTGTTTCACGACAGAGATCTTAGAGGGATTTGATGTGCAGAGAACAAGTGGCTTAGCTGATACGTTGAGGAAGTATGGTTATCTTACTCAAGCAATAGCCMapped 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|51343470|gb|CO984203.1|CO984203EST: GTGGAAGGTGACCCAAATTCTTCTGAAGCTGCTGAAAGCATAAAAACTGC TTGTTTTACAACTGAGATTCTGGAGGGATTTGATGTTCAGAGAACAAGTGG
genomic: GTGGAAGGTGACCCAAATTCTTCTGAAGCTGCTGAAAGCATAAAAACTGCgtaagtatta ... acttgtacagTTGTTTTACAACTGAGATTCTGGAGGGATTTGATGTTCAGAGAACAAGTGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taaaaactcaaaacattaaccccgtttacgatgtttttaatcccaacttgtacagTTGTTTTACAACTGAGATTCTGGAGGGATTTGATGTTCAGAGAACAAGTGGCTTAGGTGATACTCTAAGGAAGTATGGTTATCTTACCCAAGCAATTTCT
atgtttttaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gatttttcgtgagtgaagtttatttaaattgtttgcctatatatctaaaaactcaaaacattaaccccgtttacgatgtttttaatcccaacttgtacagTTGTTTTACAACTGAGATTCTGGAGGGATTTGATGTTCAGAGAACAAGTGGCTTAGGTGATACTCTAAGGAAGTATGGTTATCTTACCCAAGCAATTTCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - -tgagtga
- - - - - - - - - - - - - - -tgtttgc
- - - - - - - - - - - - - - - - - - - - - - - - - actcaaa